cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009925.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009925.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009925.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009926.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009926.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009926.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009927.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009927.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009927.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009928.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009928.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009928.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009929.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009929.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009929.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009930.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009930.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009930.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009931.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009931.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009931.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009932.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009932.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009932.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009933.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009933.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009933.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009934.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009934.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acaryochloris_marina_MBIC11017_uid58167/NC_009934.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021976.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021976.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021976.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021977.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021977.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021977.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021978.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021978.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021978.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021979.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021979.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021979.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021991.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021991.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021991.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021992.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021992.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021992.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021993.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021993.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_386B_uid214433/NC_021993.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017104.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017104.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017104.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017105.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017105.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017105.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017106.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017106.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017106.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017107.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017107.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017107.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017150.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017150.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017150.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017151.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017151.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017151.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017152.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017152.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_42C_uid158377/NC_017152.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013209.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013209.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013209.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013210.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013210.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013210.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013211.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013211.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013211.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013212.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013212.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013212.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013213.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013213.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013213.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013214.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013214.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013214.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013215.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013215.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_01_uid59279/NC_013215.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017100.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017100.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017100.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017101.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017101.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017101.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017109.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017109.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017109.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017118.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017118.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017118.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017119.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017119.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017119.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017120.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017120.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017120.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017142.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017142.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_03_uid158373/NC_017142.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017110.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017110.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017110.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017121.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017121.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017121.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017122.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017122.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017122.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017123.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017123.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017123.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017124.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017124.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017124.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017143.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017143.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017143.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017144.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017144.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_07_uid158381/NC_017144.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017108.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017108.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017108.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017113.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017113.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017113.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017114.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017114.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017114.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017115.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017115.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017115.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017116.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017116.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017116.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017136.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017136.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017136.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017137.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017137.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_12_uid158379/NC_017137.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017117.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017117.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017117.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017125.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017125.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017125.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017126.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017126.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017126.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017127.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017127.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017127.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017128.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017128.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017128.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017129.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017129.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017129.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017145.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017145.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_22_uid158383/NC_017145.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017130.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017130.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017130.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017131.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017131.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017131.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017132.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017132.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017132.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017133.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017133.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017133.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017146.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017146.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017146.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017147.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017147.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017147.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017148.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017148.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_26_uid158531/NC_017148.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017102.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017102.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017102.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017103.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017103.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017103.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017111.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017111.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017111.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017112.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017112.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017112.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017134.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017134.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017134.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017135.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017135.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017135.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017149.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017149.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacter_pasteurianus_IFO_3283_32_uid158375/NC_017149.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacterium_woodii_DSM_1030_uid88073/NC_016894.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacterium_woodii_DSM_1030_uid88073/NC_016894.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetobacterium_woodii_DSM_1030_uid88073/NC_016894.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetohalobium_arabaticum_DSM_5501_uid51423/NC_014378.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetohalobium_arabaticum_DSM_5501_uid51423/NC_014378.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acetohalobium_arabaticum_DSM_5501_uid51423/NC_014378.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acholeplasma_brassicae_uid222823/NC_022549.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acholeplasma_brassicae_uid222823/NC_022549.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acholeplasma_brassicae_uid222823/NC_022549.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acholeplasma_laidlawii_PG_8A_uid58901/NC_010163.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acholeplasma_laidlawii_PG_8A_uid58901/NC_010163.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acholeplasma_laidlawii_PG_8A_uid58901/NC_010163.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acholeplasma_palmae_J233_uid222824/NC_022538.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acholeplasma_palmae_J233_uid222824/NC_022538.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acholeplasma_palmae_J233_uid222824/NC_022538.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_A8_uid59899/NC_014640.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_A8_uid59899/NC_014640.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_A8_uid59899/NC_014640.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_A8_uid59899/NC_014641.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_A8_uid59899/NC_014641.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_A8_uid59899/NC_014641.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_A8_uid59899/NC_014642.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_A8_uid59899/NC_014642.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_A8_uid59899/NC_014642.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_NBRC_15126_uid232243/NC_023061.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_NBRC_15126_uid232243/NC_023061.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_NBRC_15126_uid232243/NC_023061.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_uid205255/NC_021285.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_uid205255/NC_021285.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Achromobacter_xylosoxidans_uid205255/NC_021285.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidaminococcus_fermentans_DSM_20731_uid43471/NC_013740.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidaminococcus_fermentans_DSM_20731_uid43471/NC_013740.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidaminococcus_fermentans_DSM_20731_uid43471/NC_013740.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidaminococcus_intestini_RyC_MR95_uid74445/NC_016077.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidaminococcus_intestini_RyC_MR95_uid74445/NC_016077.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidaminococcus_intestini_RyC_MR95_uid74445/NC_016077.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidimicrobidae_bacterium_YM16_304_uid193703/NC_020520.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidimicrobidae_bacterium_YM16_304_uid193703/NC_020520.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidimicrobidae_bacterium_YM16_304_uid193703/NC_020520.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidimicrobium_ferrooxidans_DSM_10331_uid59215/NC_013124.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidimicrobium_ferrooxidans_DSM_10331_uid59215/NC_013124.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidimicrobium_ferrooxidans_DSM_10331_uid59215/NC_013124.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009467.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009467.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009467.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009468.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009468.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009468.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009469.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009469.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009469.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009470.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009470.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009470.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009471.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009471.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009471.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009472.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009472.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009472.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009473.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009473.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009473.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009474.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009474.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009474.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009484.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009484.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_cryptum_JF_5_uid58447/NC_009484.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015178.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015178.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015178.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015179.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015179.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015179.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015180.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015180.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015180.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015181.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015181.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015181.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015182.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015182.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015182.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015186.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015186.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015186.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015187.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015187.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015187.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015188.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015188.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015188.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015189.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015189.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidiphilium_multivorum_AIU301_uid63345/NC_015189.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015850.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015850.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015850.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015851.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015851.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015851.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015852.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015852.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015852.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015853.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015853.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015853.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015854.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015854.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_caldus_SM_1_uid70791/NC_015854.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_ferrivorans_SS3_uid67387/NC_015942.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_ferrivorans_SS3_uid67387/NC_015942.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_ferrivorans_SS3_uid67387/NC_015942.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_ferrooxidans_ATCC_23270_uid57649/NC_011761.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_ferrooxidans_ATCC_23270_uid57649/NC_011761.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_ferrooxidans_ATCC_23270_uid57649/NC_011761.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_ferrooxidans_ATCC_53993_uid58613/NC_011206.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_ferrooxidans_ATCC_53993_uid58613/NC_011206.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidithiobacillus_ferrooxidans_ATCC_53993_uid58613/NC_011206.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015057.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015057.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015057.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015058.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015058.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015058.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015059.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015059.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015059.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015060.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015060.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015060.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015064.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015064.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015064.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015065.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015065.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_MP5ACTX9_uid50551/NC_015065.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_capsulatum_ATCC_51196_uid59127/NC_012483.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_capsulatum_ATCC_51196_uid59127/NC_012483.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidobacterium_capsulatum_ATCC_51196_uid59127/NC_012483.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidothermus_cellulolyticus_11B_uid58501/NC_008578.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidothermus_cellulolyticus_11B_uid58501/NC_008578.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidothermus_cellulolyticus_11B_uid58501/NC_008578.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_JS42_uid58427/NC_008765.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_JS42_uid58427/NC_008765.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_JS42_uid58427/NC_008765.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_JS42_uid58427/NC_008766.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_JS42_uid58427/NC_008766.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_JS42_uid58427/NC_008766.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_JS42_uid58427/NC_008782.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_JS42_uid58427/NC_008782.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_JS42_uid58427/NC_008782.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_KKS102_uid176500/NC_018708.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_KKS102_uid176500/NC_018708.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_KKS102_uid176500/NC_018708.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_avenae_ATCC_19860_uid42497/NC_015138.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_avenae_ATCC_19860_uid42497/NC_015138.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_avenae_ATCC_19860_uid42497/NC_015138.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_citrulli_AAC00_1_uid58429/NC_008752.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_citrulli_AAC00_1_uid58429/NC_008752.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_citrulli_AAC00_1_uid58429/NC_008752.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_ebreus_TPSY_uid59233/NC_011992.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_ebreus_TPSY_uid59233/NC_011992.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acidovorax_ebreus_TPSY_uid59233/NC_011992.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aciduliprofundum_MAR08_339_uid184407/NC_019942.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aciduliprofundum_MAR08_339_uid184407/NC_019942.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aciduliprofundum_MAR08_339_uid184407/NC_019942.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_ADP1_uid61597/NC_005966.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_ADP1_uid61597/NC_005966.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_ADP1_uid61597/NC_005966.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_1656_2_uid158677/NC_017162.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_1656_2_uid158677/NC_017162.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_1656_2_uid158677/NC_017162.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_1656_2_uid158677/NC_017163.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_1656_2_uid158677/NC_017163.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_1656_2_uid158677/NC_017163.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_1656_2_uid158677/NC_017164.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_1656_2_uid158677/NC_017164.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_1656_2_uid158677/NC_017164.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AB0057_uid59083/NC_011585.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AB0057_uid59083/NC_011585.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AB0057_uid59083/NC_011585.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AB0057_uid59083/NC_011586.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AB0057_uid59083/NC_011586.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AB0057_uid59083/NC_011586.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AB307_0294_uid59271/NC_011595.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AB307_0294_uid59271/NC_011595.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AB307_0294_uid59271/NC_011595.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ACICU_uid58765/NC_010605.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ACICU_uid58765/NC_010605.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ACICU_uid58765/NC_010605.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ACICU_uid58765/NC_010606.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ACICU_uid58765/NC_010606.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ACICU_uid58765/NC_010606.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ACICU_uid58765/NC_010611.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ACICU_uid58765/NC_010611.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ACICU_uid58765/NC_010611.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ATCC_17978_uid58731/NC_009083.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ATCC_17978_uid58731/NC_009083.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ATCC_17978_uid58731/NC_009083.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ATCC_17978_uid58731/NC_009084.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ATCC_17978_uid58731/NC_009084.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ATCC_17978_uid58731/NC_009084.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ATCC_17978_uid58731/NC_009085.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ATCC_17978_uid58731/NC_009085.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ATCC_17978_uid58731/NC_009085.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010401.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010401.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010401.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010402.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010402.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010402.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010403.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010403.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010403.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010404.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010404.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010404.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010410.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010410.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_AYE_uid61637/NC_010410.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB07104_uid210971/NC_021726.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB07104_uid210971/NC_021726.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB07104_uid210971/NC_021726.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB07104_uid210971/NC_021727.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB07104_uid210971/NC_021727.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB07104_uid210971/NC_021727.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB07104_uid210971/NC_021728.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB07104_uid210971/NC_021728.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB07104_uid210971/NC_021728.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0715_uid210972/NC_021733.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0715_uid210972/NC_021733.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0715_uid210972/NC_021733.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0715_uid210972/NC_021734.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0715_uid210972/NC_021734.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0715_uid210972/NC_021734.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021729.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021729.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021729.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021730.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021730.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021730.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021731.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021731.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021731.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021732.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021732.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_BJAB0868_uid210973/NC_021732.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_D1279779_uid190222/NC_020525.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_D1279779_uid190222/NC_020525.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_D1279779_uid190222/NC_020525.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_D1279779_uid190222/NC_020547.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_D1279779_uid190222/NC_020547.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_D1279779_uid190222/NC_020547.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_TJ_uid162739/NC_017847.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_TJ_uid162739/NC_017847.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_TJ_uid162739/NC_017847.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_TJ_uid162739/NC_017848.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_TJ_uid162739/NC_017848.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_TJ_uid162739/NC_017848.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_TJ_uid162739/NC_020524.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_TJ_uid162739/NC_020524.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_TJ_uid162739/NC_020524.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_ZJ06_uid158685/NC_017171.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_ZJ06_uid158685/NC_017171.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_ZJ06_uid158685/NC_017171.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_ZJ06_uid158685/NC_017172.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_ZJ06_uid158685/NC_017172.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_MDR_ZJ06_uid158685/NC_017172.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010395.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010395.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010395.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010396.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010396.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010396.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010398.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010398.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010398.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010400.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010400.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_SDF_uid61601/NC_010400.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TCDC_AB0715_uid158679/NC_017165.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TCDC_AB0715_uid158679/NC_017165.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TCDC_AB0715_uid158679/NC_017165.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TCDC_AB0715_uid158679/NC_017166.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TCDC_AB0715_uid158679/NC_017166.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TCDC_AB0715_uid158679/NC_017166.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TCDC_AB0715_uid158679/NC_017387.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TCDC_AB0715_uid158679/NC_017387.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TCDC_AB0715_uid158679/NC_017387.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TYTH_1_uid176498/NC_018706.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TYTH_1_uid176498/NC_018706.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_TYTH_1_uid176498/NC_018706.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ZW85_1_uid231518/NC_023028.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ZW85_1_uid231518/NC_023028.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ZW85_1_uid231518/NC_023028.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ZW85_1_uid231518/NC_023031.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ZW85_1_uid231518/NC_023031.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_baumannii_ZW85_1_uid231518/NC_023031.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_calcoaceticus_PHEA_2_uid83123/NC_016603.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_calcoaceticus_PHEA_2_uid83123/NC_016603.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_calcoaceticus_PHEA_2_uid83123/NC_016603.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_oleivorans_DR1_uid50119/NC_014259.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_oleivorans_DR1_uid50119/NC_014259.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Acinetobacter_oleivorans_DR1_uid50119/NC_014259.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_3_JL03_uid58891/NC_010278.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_3_JL03_uid58891/NC_010278.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_3_JL03_uid58891/NC_010278.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_5b_L20_uid58789/NC_009053.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_5b_L20_uid58789/NC_009053.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_5b_L20_uid58789/NC_009053.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010939.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010939.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010939.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010940.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010940.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010940.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010941.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010941.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010941.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010942.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010942.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_pleuropneumoniae_serovar_7_AP76_uid59231/NC_010942.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_succinogenes_130Z_uid58247/NC_009655.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_succinogenes_130Z_uid58247/NC_009655.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_succinogenes_130Z_uid58247/NC_009655.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_suis_H91_0380_uid176363/NC_018690.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_suis_H91_0380_uid176363/NC_018690.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinobacillus_suis_H91_0380_uid176363/NC_018690.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_N902_109_uid202219/NC_021191.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_N902_109_uid202219/NC_021191.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_N902_109_uid202219/NC_021191.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_SE50_110_uid162333/NC_017803.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_SE50_110_uid162333/NC_017803.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_SE50_110_uid162333/NC_017803.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_friuliensis_DSM_7358_uid226110/NC_022657.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_friuliensis_DSM_7358_uid226110/NC_022657.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_friuliensis_DSM_7358_uid226110/NC_022657.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_missouriensis_431_uid158169/NC_017093.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_missouriensis_431_uid158169/NC_017093.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinoplanes_missouriensis_431_uid158169/NC_017093.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinosynnema_mirum_DSM_43827_uid58951/NC_013093.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinosynnema_mirum_DSM_43827_uid58951/NC_013093.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Actinosynnema_mirum_DSM_43827_uid58951/NC_013093.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Adlercreutzia_equolifaciens_DSM_19450_uid223286/NC_022567.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Adlercreutzia_equolifaciens_DSM_19450_uid223286/NC_022567.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Adlercreutzia_equolifaciens_DSM_19450_uid223286/NC_022567.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Advenella_kashmirensis_WT001_uid80859/NC_017964.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Advenella_kashmirensis_WT001_uid80859/NC_017964.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Advenella_kashmirensis_WT001_uid80859/NC_017964.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Advenella_kashmirensis_WT001_uid80859/NC_017965.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Advenella_kashmirensis_WT001_uid80859/NC_017965.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Advenella_kashmirensis_WT001_uid80859/NC_017965.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aequorivita_sublithincola_DSM_14238_uid168181/NC_018013.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aequorivita_sublithincola_DSM_14238_uid168181/NC_018013.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aequorivita_sublithincola_DSM_14238_uid168181/NC_018013.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aerococcus_urinae_ACS_120_V_Col10a_uid64757/NC_015278.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aerococcus_urinae_ACS_120_V_Col10a_uid64757/NC_015278.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aerococcus_urinae_ACS_120_V_Col10a_uid64757/NC_015278.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_hydrophila_ATCC_7966_uid58617/NC_008570.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_hydrophila_ATCC_7966_uid58617/NC_008570.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_hydrophila_ATCC_7966_uid58617/NC_008570.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_hydrophila_ML09_119_uid205540/NC_021290.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_hydrophila_ML09_119_uid205540/NC_021290.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_hydrophila_ML09_119_uid205540/NC_021290.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_004923.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_004923.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_004923.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_004924.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_004924.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_004924.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_004925.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_004925.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_004925.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_009348.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_009348.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_009348.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_009349.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_009349.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_009349.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_009350.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_009350.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_salmonicida_A449_uid58631/NC_009350.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_veronii_B565_uid66323/NC_015424.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_veronii_B565_uid66323/NC_015424.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aeromonas_veronii_B565_uid66323/NC_015424.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_ANH9381_uid80743/NC_016513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_ANH9381_uid80743/NC_016513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_ANH9381_uid80743/NC_016513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_013416.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_013416.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_013416.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_013438.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_013438.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_013438.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_013597.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_013597.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_013597.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_014629.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_014629.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D11S_1_uid41333/NC_014629.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D7S_1_uid46989/NC_017846.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D7S_1_uid46989/NC_017846.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_actinomycetemcomitans_D7S_1_uid46989/NC_017846.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_aphrophilus_NJ8700_uid59407/NC_012913.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_aphrophilus_NJ8700_uid59407/NC_012913.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aggregatibacter_aphrophilus_NJ8700_uid59407/NC_012913.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_H13_3_uid63403/NC_015183.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_H13_3_uid63403/NC_015183.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_H13_3_uid63403/NC_015183.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_H13_3_uid63403/NC_015184.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_H13_3_uid63403/NC_015184.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_H13_3_uid63403/NC_015184.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_H13_3_uid63403/NC_015508.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_H13_3_uid63403/NC_015508.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_H13_3_uid63403/NC_015508.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003062.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003062.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003062.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003063.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003063.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003063.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003064.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003064.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003064.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003065.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003065.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_fabrum_C58_uid57865/NC_003065.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011983.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011983.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011983.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011985.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011985.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011985.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011987.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011987.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011987.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011990.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011990.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011990.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011994.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011994.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_radiobacter_K84_uid58269/NC_011994.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011981.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011981.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011981.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011982.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011982.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011982.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011984.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011984.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011984.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011986.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011986.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011986.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011988.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011988.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011988.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011989.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011989.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011989.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011991.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011991.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agrobacterium_vitis_S4_uid58249/NC_011991.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agromonas_oligotrophica_S58_uid192186/NC_020453.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agromonas_oligotrophica_S58_uid192186/NC_020453.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Agromonas_oligotrophica_S58_uid192186/NC_020453.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Akkermansia_muciniphila_ATCC_BAA_835_uid58985/NC_010655.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Akkermansia_muciniphila_ATCC_BAA_835_uid58985/NC_010655.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Akkermansia_muciniphila_ATCC_BAA_835_uid58985/NC_010655.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alcanivorax_borkumensis_SK2_uid58169/NC_008260.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alcanivorax_borkumensis_SK2_uid58169/NC_008260.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alcanivorax_borkumensis_SK2_uid58169/NC_008260.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alcanivorax_dieselolei_B5_uid176364/NC_018691.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alcanivorax_dieselolei_B5_uid176364/NC_018691.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alcanivorax_dieselolei_B5_uid176364/NC_018691.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_BC_uid49953/NC_014908.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_BC_uid49953/NC_014908.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_BC_uid49953/NC_014908.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_BC_uid49953/NC_014910.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_BC_uid49953/NC_014910.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_BC_uid49953/NC_014910.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_BC_uid49953/NC_014911.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_BC_uid49953/NC_014911.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_BC_uid49953/NC_014911.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_K601_uid66307/NC_015422.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_K601_uid66307/NC_015422.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_K601_uid66307/NC_015422.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_K601_uid66307/NC_015423.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_K601_uid66307/NC_015423.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicycliphilus_denitrificans_K601_uid66307/NC_015423.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013205.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013205.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013205.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013206.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013206.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013206.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013207.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013207.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013207.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013208.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013208.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_DSM_446_uid59199/NC_013208.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_Tc_4_1_uid158681/NC_017167.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_Tc_4_1_uid158681/NC_017167.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alicyclobacillus_acidocaldarius_Tc_4_1_uid158681/NC_017167.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011311.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011311.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011311.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011312.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011312.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011312.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011313.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011313.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011313.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011314.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011314.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011314.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011315.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011315.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011315.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011316.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011316.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aliivibrio_salmonicida_LFI1238_uid59251/NC_011316.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alistipes_finegoldii_DSM_17242_uid168180/NC_018011.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alistipes_finegoldii_DSM_17242_uid168180/NC_018011.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alistipes_finegoldii_DSM_17242_uid168180/NC_018011.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alistipes_shahii_WAL_8301_uid197175/NC_021030.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alistipes_shahii_WAL_8301_uid197175/NC_021030.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alistipes_shahii_WAL_8301_uid197175/NC_021030.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alkalilimnicola_ehrlichii_MLHE_1_uid58467/NC_008340.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alkalilimnicola_ehrlichii_MLHE_1_uid58467/NC_008340.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alkalilimnicola_ehrlichii_MLHE_1_uid58467/NC_008340.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alkaliphilus_metalliredigens_QYMF_uid58171/NC_009633.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alkaliphilus_metalliredigens_QYMF_uid58171/NC_009633.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alkaliphilus_metalliredigens_QYMF_uid58171/NC_009633.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alkaliphilus_oremlandii_OhILAs_uid58495/NC_009922.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alkaliphilus_oremlandii_OhILAs_uid58495/NC_009922.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alkaliphilus_oremlandii_OhILAs_uid58495/NC_009922.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Allochromatium_vinosum_DSM_180_uid46083/NC_013851.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Allochromatium_vinosum_DSM_180_uid46083/NC_013851.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Allochromatium_vinosum_DSM_180_uid46083/NC_013851.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Allochromatium_vinosum_DSM_180_uid46083/NC_013852.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Allochromatium_vinosum_DSM_180_uid46083/NC_013852.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Allochromatium_vinosum_DSM_180_uid46083/NC_013852.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Allochromatium_vinosum_DSM_180_uid46083/NC_013862.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Allochromatium_vinosum_DSM_180_uid46083/NC_013862.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Allochromatium_vinosum_DSM_180_uid46083/NC_013862.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_SN2_uid67349/NC_015554.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_SN2_uid67349/NC_015554.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_SN2_uid67349/NC_015554.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii_ATCC_27126_uid55253/NC_018632.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii_ATCC_27126_uid55253/NC_018632.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii_ATCC_27126_uid55253/NC_018632.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii_AltDE1_uid179068/NC_019393.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii_AltDE1_uid179068/NC_019393.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii_AltDE1_uid179068/NC_019393.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii_AltDE1_uid179068/NC_019394.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii_AltDE1_uid179068/NC_019394.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii_AltDE1_uid179068/NC_019394.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Aegean_Sea_MED64__uid231689/NC_023045.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Aegean_Sea_MED64__uid231689/NC_023045.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Aegean_Sea_MED64__uid231689/NC_023045.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Balearic_Sea_AD45__uid176366/NC_018679.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Balearic_Sea_AD45__uid176366/NC_018679.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Balearic_Sea_AD45__uid176366/NC_018679.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Balearic_Sea_AD45__uid176366/NC_018680.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Balearic_Sea_AD45__uid176366/NC_018680.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Balearic_Sea_AD45__uid176366/NC_018680.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Black_Sea_11__uid176365/NC_018692.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Black_Sea_11__uid176365/NC_018692.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Black_Sea_11__uid176365/NC_018692.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Deep_ecotype__uid58251/NC_011138.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Deep_ecotype__uid58251/NC_011138.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Deep_ecotype__uid58251/NC_011138.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__English_Channel_615__uid210781/NC_021709.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__English_Channel_615__uid210781/NC_021709.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__English_Channel_615__uid210781/NC_021709.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__English_Channel_615__uid210781/NC_021716.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__English_Channel_615__uid210781/NC_021716.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__English_Channel_615__uid210781/NC_021716.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__English_Channel_673__uid176367/NC_018678.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__English_Channel_673__uid176367/NC_018678.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__English_Channel_673__uid176367/NC_018678.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U4__uid210780/NC_021710.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U4__uid210780/NC_021710.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U4__uid210780/NC_021710.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U4__uid210780/NC_021711.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U4__uid210780/NC_021711.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U4__uid210780/NC_021711.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U7__uid210785/NC_021717.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U7__uid210785/NC_021717.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U7__uid210785/NC_021717.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U8__uid210782/NC_021712.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U8__uid210782/NC_021712.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_U8__uid210782/NC_021712.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_UM4b__uid210784/NC_021714.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_UM4b__uid210784/NC_021714.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_UM4b__uid210784/NC_021714.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_UM7__uid210783/NC_021713.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_UM7__uid210783/NC_021713.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_UM7__uid210783/NC_021713.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_UM7__uid210783/NC_021718.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_UM7__uid210783/NC_021718.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Alteromonas_macleodii__Ionian_Sea_UM7__uid210783/NC_021718.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aminobacterium_colombiense_DSM_12261_uid47083/NC_014011.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aminobacterium_colombiense_DSM_12261_uid47083/NC_014011.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aminobacterium_colombiense_DSM_12261_uid47083/NC_014011.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ammonifex_degensii_KC4_uid41053/NC_013385.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ammonifex_degensii_KC4_uid41053/NC_013385.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ammonifex_degensii_KC4_uid41053/NC_013385.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ammonifex_degensii_KC4_uid41053/NC_013386.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ammonifex_degensii_KC4_uid41053/NC_013386.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ammonifex_degensii_KC4_uid41053/NC_013386.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amphibacillus_xylanus_NBRC_15112_uid176453/NC_018704.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amphibacillus_xylanus_NBRC_15112_uid176453/NC_018704.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amphibacillus_xylanus_NBRC_15112_uid176453/NC_018704.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_RB_uid216089/NC_022116.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_RB_uid216089/NC_022116.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_RB_uid216089/NC_022116.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_S699_uid158689/NC_017186.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_S699_uid158689/NC_017186.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_S699_uid158689/NC_017186.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_S699_uid171830/NC_018266.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_S699_uid171830/NC_018266.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_S699_uid171830/NC_018266.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_U32_uid50565/NC_014318.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_U32_uid50565/NC_014318.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_mediterranei_U32_uid50565/NC_014318.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_orientalis_HCCB10007_uid203791/NC_021252.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_orientalis_HCCB10007_uid203791/NC_021252.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_orientalis_HCCB10007_uid203791/NC_021252.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_orientalis_HCCB10007_uid203791/NC_023497.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_orientalis_HCCB10007_uid203791/NC_023497.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolatopsis_orientalis_HCCB10007_uid203791/NC_023497.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolicicoccus_subflavus_DQS3_9A1_uid67253/NC_015560.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolicicoccus_subflavus_DQS3_9A1_uid67253/NC_015560.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolicicoccus_subflavus_DQS3_9A1_uid67253/NC_015560.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolicicoccus_subflavus_DQS3_9A1_uid67253/NC_015561.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolicicoccus_subflavus_DQS3_9A1_uid67253/NC_015561.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolicicoccus_subflavus_DQS3_9A1_uid67253/NC_015561.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolicicoccus_subflavus_DQS3_9A1_uid67253/NC_015564.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolicicoccus_subflavus_DQS3_9A1_uid67253/NC_015564.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Amycolicicoccus_subflavus_DQS3_9A1_uid67253/NC_015564.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019427.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019427.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019427.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019428.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019428.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019428.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019429.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019429.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019429.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019439.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019439.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019439.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019440.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019440.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_90_uid179383/NC_019440.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019771.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019771.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019771.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019772.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019772.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019772.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019773.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019773.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019773.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019774.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019774.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019774.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019775.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019775.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_019775.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_020056.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_020056.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_020056.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_020157.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_020157.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_cylindrica_PCC_7122_uid183339/NC_020157.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007410.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007410.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007410.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007411.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007411.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007411.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007412.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007412.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007412.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007413.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007413.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_007413.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_014000.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_014000.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anabaena_variabilis_ATCC_29413_uid58043/NC_014000.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerobaculum_mobile_DSM_13181_uid168323/NC_018024.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerobaculum_mobile_DSM_13181_uid168323/NC_018024.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerobaculum_mobile_DSM_13181_uid168323/NC_018024.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerococcus_prevotii_DSM_20548_uid59219/NC_013164.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerococcus_prevotii_DSM_20548_uid59219/NC_013164.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerococcus_prevotii_DSM_20548_uid59219/NC_013164.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerococcus_prevotii_DSM_20548_uid59219/NC_013171.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerococcus_prevotii_DSM_20548_uid59219/NC_013171.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerococcus_prevotii_DSM_20548_uid59219/NC_013171.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerolinea_thermophila_UNI_1_uid62245/NC_014960.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerolinea_thermophila_UNI_1_uid62245/NC_014960.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaerolinea_thermophila_UNI_1_uid62245/NC_014960.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_Fw109_5_uid58755/NC_009675.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_Fw109_5_uid58755/NC_009675.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_Fw109_5_uid58755/NC_009675.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_K_uid58953/NC_011145.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_K_uid58953/NC_011145.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_K_uid58953/NC_011145.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_dehalogenans_2CP_1_uid58989/NC_011891.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_dehalogenans_2CP_1_uid58989/NC_011891.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_dehalogenans_2CP_1_uid58989/NC_011891.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_dehalogenans_2CP_C_uid58135/NC_007760.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_dehalogenans_2CP_C_uid58135/NC_007760.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaeromyxobacter_dehalogenans_2CP_C_uid58135/NC_007760.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_centrale_Israel_uid42155/NC_013532.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_centrale_Israel_uid42155/NC_013532.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_centrale_Israel_uid42155/NC_013532.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Dawn_uid226994/NC_022760.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Dawn_uid226994/NC_022760.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Dawn_uid226994/NC_022760.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Florida_uid58577/NC_012026.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Florida_uid58577/NC_012026.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Florida_uid58577/NC_012026.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Gypsy_Plains_uid227217/NC_022784.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Gypsy_Plains_uid227217/NC_022784.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Gypsy_Plains_uid227217/NC_022784.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Maries_uid57629/NC_004842.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Maries_uid57629/NC_004842.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_marginale_Maries_uid57629/NC_004842.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_Dog2_uid213225/NC_021881.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_Dog2_uid213225/NC_021881.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_Dog2_uid213225/NC_021881.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_HZ2_uid213224/NC_021879.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_HZ2_uid213224/NC_021879.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_HZ2_uid213224/NC_021879.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_HZ_uid57951/NC_007797.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_HZ_uid57951/NC_007797.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_HZ_uid57951/NC_007797.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_JM_uid213223/NC_021880.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_JM_uid213223/NC_021880.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anaplasma_phagocytophilum_JM_uid213223/NC_021880.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anoxybacillus_flavithermus_WK1_uid59135/NC_011567.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anoxybacillus_flavithermus_WK1_uid59135/NC_011567.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Anoxybacillus_flavithermus_WK1_uid59135/NC_011567.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcanobacterium_haemolyticum_DSM_20595_uid49489/NC_014218.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcanobacterium_haemolyticum_DSM_20595_uid49489/NC_014218.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcanobacterium_haemolyticum_DSM_20595_uid49489/NC_014218.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_L_uid158135/NC_017192.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_L_uid158135/NC_017192.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_L_uid158135/NC_017192.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_L_uid158135/NC_017193.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_L_uid158135/NC_017193.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_L_uid158135/NC_017193.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_butzleri_7h1h_uid200766/NC_021878.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_butzleri_7h1h_uid200766/NC_021878.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_butzleri_7h1h_uid200766/NC_021878.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_butzleri_ED_1_uid158699/NC_017187.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_butzleri_ED_1_uid158699/NC_017187.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_butzleri_ED_1_uid158699/NC_017187.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_butzleri_RM4018_uid58557/NC_009850.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_butzleri_RM4018_uid58557/NC_009850.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_butzleri_RM4018_uid58557/NC_009850.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_nitrofigilis_DSM_7299_uid49001/NC_014166.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_nitrofigilis_DSM_7299_uid49001/NC_014166.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arcobacter_nitrofigilis_DSM_7299_uid49001/NC_014166.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aromatoleum_aromaticum_EbN1_uid58231/NC_006513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aromatoleum_aromaticum_EbN1_uid58231/NC_006513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aromatoleum_aromaticum_EbN1_uid58231/NC_006513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aromatoleum_aromaticum_EbN1_uid58231/NC_006823.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aromatoleum_aromaticum_EbN1_uid58231/NC_006823.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aromatoleum_aromaticum_EbN1_uid58231/NC_006823.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aromatoleum_aromaticum_EbN1_uid58231/NC_006824.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aromatoleum_aromaticum_EbN1_uid58231/NC_006824.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aromatoleum_aromaticum_EbN1_uid58231/NC_006824.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008537.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008537.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008537.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008538.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008538.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008538.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008539.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008539.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008539.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008541.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008541.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_FB24_uid58141/NC_008541.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_Rue61a_uid174511/NC_009453.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_Rue61a_uid174511/NC_009453.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_Rue61a_uid174511/NC_009453.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_Rue61a_uid174511/NC_018531.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_Rue61a_uid174511/NC_018531.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_Rue61a_uid174511/NC_018531.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_Rue61a_uid174511/NC_018532.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_Rue61a_uid174511/NC_018532.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_Rue61a_uid174511/NC_018532.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_arilaitensis_Re117_uid53509/NC_014548.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_arilaitensis_Re117_uid53509/NC_014548.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_arilaitensis_Re117_uid53509/NC_014548.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_arilaitensis_Re117_uid53509/NC_014549.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_arilaitensis_Re117_uid53509/NC_014549.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_arilaitensis_Re117_uid53509/NC_014549.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_arilaitensis_Re117_uid53509/NC_014550.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_arilaitensis_Re117_uid53509/NC_014550.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_arilaitensis_Re117_uid53509/NC_014550.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_aurescens_TC1_uid58109/NC_008711.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_aurescens_TC1_uid58109/NC_008711.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_aurescens_TC1_uid58109/NC_008711.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_aurescens_TC1_uid58109/NC_008712.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_aurescens_TC1_uid58109/NC_008712.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_aurescens_TC1_uid58109/NC_008712.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_aurescens_TC1_uid58109/NC_008713.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_aurescens_TC1_uid58109/NC_008713.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_aurescens_TC1_uid58109/NC_008713.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_chlorophenolicus_A6_uid58969/NC_011879.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_chlorophenolicus_A6_uid58969/NC_011879.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_chlorophenolicus_A6_uid58969/NC_011879.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_chlorophenolicus_A6_uid58969/NC_011881.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_chlorophenolicus_A6_uid58969/NC_011881.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_chlorophenolicus_A6_uid58969/NC_011881.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_chlorophenolicus_A6_uid58969/NC_011886.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_chlorophenolicus_A6_uid58969/NC_011886.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_chlorophenolicus_A6_uid58969/NC_011886.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_phenanthrenivorans_Sphe3_uid63629/NC_015145.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_phenanthrenivorans_Sphe3_uid63629/NC_015145.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_phenanthrenivorans_Sphe3_uid63629/NC_015145.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_phenanthrenivorans_Sphe3_uid63629/NC_015146.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_phenanthrenivorans_Sphe3_uid63629/NC_015146.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_phenanthrenivorans_Sphe3_uid63629/NC_015146.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_phenanthrenivorans_Sphe3_uid63629/NC_015147.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_phenanthrenivorans_Sphe3_uid63629/NC_015147.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrobacter_phenanthrenivorans_Sphe3_uid63629/NC_015147.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrospira_platensis_NIES_39_uid197171/NC_016640.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrospira_platensis_NIES_39_uid197171/NC_016640.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Arthrospira_platensis_NIES_39_uid197171/NC_016640.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007716.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007716.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007716.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007717.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007717.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007717.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007718.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007718.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007718.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007719.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007719.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007719.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007720.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007720.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Aster_yellows_witches_broom_phytoplasma_AYWB_uid58297/NC_007720.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014816.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014816.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014816.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014817.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014817.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014817.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014818.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014818.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014818.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014819.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014819.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Asticcacaulis_excentricus_CB_48_uid55641/NC_014819.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Atopobium_parvulum_DSM_20469_uid59195/NC_013203.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Atopobium_parvulum_DSM_20469_uid59195/NC_013203.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Atopobium_parvulum_DSM_20469_uid59195/NC_013203.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azoarcus_BH72_uid61603/NC_008702.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azoarcus_BH72_uid61603/NC_008702.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azoarcus_BH72_uid61603/NC_008702.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azoarcus_KH32C_uid193704/NC_020516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azoarcus_KH32C_uid193704/NC_020516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azoarcus_KH32C_uid193704/NC_020516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azoarcus_KH32C_uid193704/NC_020548.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azoarcus_KH32C_uid193704/NC_020548.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azoarcus_KH32C_uid193704/NC_020548.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azorhizobium_caulinodans_ORS_571_uid58905/NC_009937.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azorhizobium_caulinodans_ORS_571_uid58905/NC_009937.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azorhizobium_caulinodans_ORS_571_uid58905/NC_009937.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013854.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013854.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013854.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013855.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013855.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013855.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013856.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013856.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013856.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013857.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013857.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013857.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013858.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013858.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013858.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013859.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013859.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013859.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013860.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013860.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_B510_uid46085/NC_013860.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016594.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016594.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016594.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016595.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016595.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016595.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016596.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016596.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016596.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016597.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016597.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016597.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016617.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016617.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016617.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016618.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016618.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016618.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016619.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016619.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_brasilense_Sp245_uid162161/NC_016619.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016585.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016585.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016585.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016586.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016586.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016586.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016587.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016587.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016587.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016588.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016588.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016588.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016622.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016622.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016622.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016623.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016623.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016623.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016624.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016624.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azospirillum_lipoferum_4B_uid82343/NC_016624.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azotobacter_vinelandii_CA6_uid198830/NC_021150.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azotobacter_vinelandii_CA6_uid198830/NC_021150.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azotobacter_vinelandii_CA6_uid198830/NC_021150.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azotobacter_vinelandii_CA_uid198829/NC_021149.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azotobacter_vinelandii_CA_uid198829/NC_021149.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azotobacter_vinelandii_CA_uid198829/NC_021149.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azotobacter_vinelandii_DJ_uid57597/NC_012560.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azotobacter_vinelandii_DJ_uid57597/NC_012560.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Azotobacter_vinelandii_DJ_uid57597/NC_012560.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_1NLA3E_uid81841/NC_021171.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_1NLA3E_uid81841/NC_021171.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_1NLA3E_uid81841/NC_021171.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_JS_uid162189/NC_017743.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_JS_uid162189/NC_017743.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_JS_uid162189/NC_017743.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_CC178_uid226115/NC_022653.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_CC178_uid226115/NC_022653.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_CC178_uid226115/NC_022653.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_DSM_7_uid53535/NC_014551.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_DSM_7_uid53535/NC_014551.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_DSM_7_uid53535/NC_014551.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_FZB42_uid58271/NC_009725.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_FZB42_uid58271/NC_009725.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_FZB42_uid58271/NC_009725.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_IT_45_uid181617/NC_020272.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_IT_45_uid181617/NC_020272.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_IT_45_uid181617/NC_020272.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_IT_45_uid181617/NC_020273.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_IT_45_uid181617/NC_020273.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_IT_45_uid181617/NC_020273.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_LFB112_uid232246/NC_023073.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_LFB112_uid232246/NC_023073.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_LFB112_uid232246/NC_023073.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_LL3_uid158133/NC_017189.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_LL3_uid158133/NC_017189.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_LL3_uid158133/NC_017189.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_LL3_uid158133/NC_017190.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_LL3_uid158133/NC_017190.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_LL3_uid158133/NC_017190.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_TA208_uid158701/NC_017188.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_TA208_uid158701/NC_017188.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_TA208_uid158701/NC_017188.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_XH7_uid158881/NC_017191.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_XH7_uid158881/NC_017191.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_XH7_uid158881/NC_017191.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_Y2_uid165195/NC_017912.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_Y2_uid165195/NC_017912.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_Y2_uid165195/NC_017912.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_AS43_3_uid183682/NC_019842.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_AS43_3_uid183682/NC_019842.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_AS43_3_uid183682/NC_019842.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_CAU_B946_uid84215/NC_016784.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_CAU_B946_uid84215/NC_016784.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_CAU_B946_uid84215/NC_016784.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_NAU_B3_uid222816/NC_022530.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_NAU_B3_uid222816/NC_022530.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_NAU_B3_uid222816/NC_022530.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_NAU_B3_uid222816/NC_022531.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_NAU_B3_uid222816/NC_022531.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_NAU_B3_uid222816/NC_022531.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_UCMB5033_uid215237/NC_022075.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_UCMB5033_uid215237/NC_022075.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_UCMB5033_uid215237/NC_022075.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_UCMB5036_uid190705/NC_020410.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_UCMB5036_uid190705/NC_020410.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_UCMB5036_uid190705/NC_020410.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_UCMB5113_uid215236/NC_022081.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_UCMB5113_uid215236/NC_022081.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_UCMB5113_uid215236/NC_022081.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_YAU_B9601_Y2_uid159001/NC_017061.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_YAU_B9601_Y2_uid159001/NC_017061.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_amyloliquefaciens_plantarum_YAU_B9601_Y2_uid159001/NC_017061.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A0248_uid59385/NC_012655.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A0248_uid59385/NC_012655.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A0248_uid59385/NC_012655.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A0248_uid59385/NC_012656.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A0248_uid59385/NC_012656.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A0248_uid59385/NC_012656.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A0248_uid59385/NC_012659.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A0248_uid59385/NC_012659.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A0248_uid59385/NC_012659.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A2012_uid54101/NC_003980.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A2012_uid54101/NC_003980.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A2012_uid54101/NC_003980.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A2012_uid54101/NC_003981.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A2012_uid54101/NC_003981.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_A2012_uid54101/NC_003981.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_Ames_uid57909/NC_003997.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_Ames_uid57909/NC_003997.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_Ames_uid57909/NC_003997.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_CDC_684_uid59303/NC_012577.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_CDC_684_uid59303/NC_012577.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_CDC_684_uid59303/NC_012577.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_CDC_684_uid59303/NC_012579.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_CDC_684_uid59303/NC_012579.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_CDC_684_uid59303/NC_012579.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_CDC_684_uid59303/NC_012581.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_CDC_684_uid59303/NC_012581.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_CDC_684_uid59303/NC_012581.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_H9401_uid162021/NC_017726.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_H9401_uid162021/NC_017726.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_H9401_uid162021/NC_017726.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_H9401_uid162021/NC_017727.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_H9401_uid162021/NC_017727.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_H9401_uid162021/NC_017727.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_H9401_uid162021/NC_017729.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_H9401_uid162021/NC_017729.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_H9401_uid162021/NC_017729.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_Sterne_uid58091/NC_005945.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_Sterne_uid58091/NC_005945.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis_Sterne_uid58091/NC_005945.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis__Ames_Ancestor__uid58083/NC_007322.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis__Ames_Ancestor__uid58083/NC_007322.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis__Ames_Ancestor__uid58083/NC_007322.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis__Ames_Ancestor__uid58083/NC_007323.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis__Ames_Ancestor__uid58083/NC_007323.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis__Ames_Ancestor__uid58083/NC_007323.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis__Ames_Ancestor__uid58083/NC_007530.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis__Ames_Ancestor__uid58083/NC_007530.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_anthracis__Ames_Ancestor__uid58083/NC_007530.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_atrophaeus_1942_uid59887/NC_014639.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_atrophaeus_1942_uid59887/NC_014639.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_atrophaeus_1942_uid59887/NC_014639.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cellulosilyticus_DSM_2522_uid43329/NC_014829.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cellulosilyticus_DSM_2522_uid43329/NC_014829.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cellulosilyticus_DSM_2522_uid43329/NC_014829.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_03BB102_uid59299/NC_012472.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_03BB102_uid59299/NC_012472.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_03BB102_uid59299/NC_012472.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_03BB102_uid59299/NC_012473.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_03BB102_uid59299/NC_012473.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_03BB102_uid59299/NC_012473.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011654.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011654.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011654.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011655.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011655.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011655.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011656.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011656.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011656.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011657.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011657.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011657.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011658.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011658.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH187_uid58753/NC_011658.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011771.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011771.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011771.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011773.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011773.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011773.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011776.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011776.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011776.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011777.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011777.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_AH820_uid58751/NC_011777.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_10987_uid57673/NC_003909.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_10987_uid57673/NC_003909.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_10987_uid57673/NC_003909.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_10987_uid57673/NC_005707.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_10987_uid57673/NC_005707.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_10987_uid57673/NC_005707.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_14579_uid57975/NC_004721.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_14579_uid57975/NC_004721.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_14579_uid57975/NC_004721.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_14579_uid57975/NC_004722.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_14579_uid57975/NC_004722.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_ATCC_14579_uid57975/NC_004722.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_B4264_uid58757/NC_011725.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_B4264_uid58757/NC_011725.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_B4264_uid58757/NC_011725.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_006274.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_006274.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_006274.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007103.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007103.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007103.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007104.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007104.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007104.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007105.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007105.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007105.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007106.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007106.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007106.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007107.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007107.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_E33L_uid58103/NC_007107.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_F837_76_uid83611/NC_016779.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_F837_76_uid83611/NC_016779.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_F837_76_uid83611/NC_016779.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_F837_76_uid83611/NC_016780.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_F837_76_uid83611/NC_016780.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_F837_76_uid83611/NC_016780.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_F837_76_uid83611/NC_016794.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_F837_76_uid83611/NC_016794.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_F837_76_uid83611/NC_016794.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018491.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018491.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018491.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018492.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018492.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018492.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018493.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018493.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018493.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018494.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018494.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018494.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018499.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018499.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_FRI_35_uid173403/NC_018499.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_G9842_uid58759/NC_011772.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_G9842_uid58759/NC_011772.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_G9842_uid58759/NC_011772.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_G9842_uid58759/NC_011774.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_G9842_uid58759/NC_011774.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_G9842_uid58759/NC_011774.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_G9842_uid58759/NC_011775.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_G9842_uid58759/NC_011775.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_G9842_uid58759/NC_011775.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016771.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016771.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016771.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016772.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016772.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016772.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016773.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016773.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016773.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016774.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016774.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016774.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016792.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016792.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016792.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016793.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016793.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_NC7401_uid82815/NC_016793.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_Q1_uid58529/NC_011969.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_Q1_uid58529/NC_011969.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_Q1_uid58529/NC_011969.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_Q1_uid58529/NC_011971.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_Q1_uid58529/NC_011971.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_Q1_uid58529/NC_011971.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_Q1_uid58529/NC_011973.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_Q1_uid58529/NC_011973.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_Q1_uid58529/NC_011973.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014331.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014331.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014331.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014332.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014332.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014332.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014333.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014333.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014333.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014335.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014335.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cereus_biovar_anthracis_CI_uid50615/NC_014335.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_clausii_KSM_K16_uid58237/NC_006582.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_clausii_KSM_K16_uid58237/NC_006582.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_clausii_KSM_K16_uid58237/NC_006582.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_coagulans_2_6_uid68053/NC_015634.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_coagulans_2_6_uid68053/NC_015634.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_coagulans_2_6_uid68053/NC_015634.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_coagulans_36D1_uid54335/NC_016023.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_coagulans_36D1_uid54335/NC_016023.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_coagulans_36D1_uid54335/NC_016023.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cytotoxicus_NVH_391_98_uid58317/NC_009673.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cytotoxicus_NVH_391_98_uid58317/NC_009673.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cytotoxicus_NVH_391_98_uid58317/NC_009673.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cytotoxicus_NVH_391_98_uid58317/NC_009674.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cytotoxicus_NVH_391_98_uid58317/NC_009674.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_cytotoxicus_NVH_391_98_uid58317/NC_009674.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_halodurans_C_125_uid57791/NC_002570.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_halodurans_C_125_uid57791/NC_002570.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_halodurans_C_125_uid57791/NC_002570.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_infantis_NRRL_B_14911_uid222804/NC_022524.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_infantis_NRRL_B_14911_uid222804/NC_022524.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_infantis_NRRL_B_14911_uid222804/NC_022524.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_licheniformis_9945A_uid207072/NC_021362.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_licheniformis_9945A_uid207072/NC_021362.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_licheniformis_9945A_uid207072/NC_021362.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_licheniformis_ATCC_14580_uid58097/NC_006270.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_licheniformis_ATCC_14580_uid58097/NC_006270.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_licheniformis_ATCC_14580_uid58097/NC_006270.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_licheniformis_DSM_13___ATCC_14580_uid58199/NC_006322.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_licheniformis_DSM_13___ATCC_14580_uid58199/NC_006322.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_licheniformis_DSM_13___ATCC_14580_uid58199/NC_006322.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_DSM319_uid48371/NC_014103.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_DSM319_uid48371/NC_014103.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_DSM319_uid48371/NC_014103.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_004604.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_004604.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_004604.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_010008.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_010008.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_010008.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_010009.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_010009.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_010009.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_010010.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_010010.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_010010.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014019.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014019.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014019.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014023.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014023.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014023.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014025.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014025.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014025.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014031.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014031.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_QM_B1551_uid15862/NC_014031.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017138.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017138.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017138.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017139.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017139.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017139.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017140.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017140.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017140.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017141.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017141.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_megaterium_WSH_002_uid159841/NC_017141.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pseudofirmus_OF4_uid45847/NC_013791.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pseudofirmus_OF4_uid45847/NC_013791.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pseudofirmus_OF4_uid45847/NC_013791.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pseudofirmus_OF4_uid45847/NC_013792.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pseudofirmus_OF4_uid45847/NC_013792.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pseudofirmus_OF4_uid45847/NC_013792.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pseudofirmus_OF4_uid45847/NC_013793.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pseudofirmus_OF4_uid45847/NC_013793.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pseudofirmus_OF4_uid45847/NC_013793.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pumilus_SAFR_032_uid59017/NC_009848.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pumilus_SAFR_032_uid59017/NC_009848.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_pumilus_SAFR_032_uid59017/NC_009848.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_selenitireducens_MLS10_uid49513/NC_014219.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_selenitireducens_MLS10_uid49513/NC_014219.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_selenitireducens_MLS10_uid49513/NC_014219.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_168_uid57675/NC_000964.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_168_uid57675/NC_000964.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_168_uid57675/NC_000964.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_6051_HGW_uid193706/NC_020507.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_6051_HGW_uid193706/NC_020507.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_6051_HGW_uid193706/NC_020507.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_BAB_1_uid195461/NC_020832.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_BAB_1_uid195461/NC_020832.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_BAB_1_uid195461/NC_020832.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_BSP1_uid184010/NC_019896.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_BSP1_uid184010/NC_019896.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_BSP1_uid184010/NC_019896.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_BSn5_uid62463/NC_014976.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_BSn5_uid62463/NC_014976.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_BSn5_uid62463/NC_014976.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_PY79_uid229877/NC_022898.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_PY79_uid229877/NC_022898.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_PY79_uid229877/NC_022898.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_QB928_uid173926/NC_018520.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_QB928_uid173926/NC_018520.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_QB928_uid173926/NC_018520.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_RO_NN_1_uid158879/NC_017195.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_RO_NN_1_uid158879/NC_017195.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_RO_NN_1_uid158879/NC_017195.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_XF_1_uid189187/NC_020244.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_XF_1_uid189187/NC_020244.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_XF_1_uid189187/NC_020244.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_natto_BEST195_uid183001/NC_017194.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_natto_BEST195_uid183001/NC_017194.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_natto_BEST195_uid183001/NC_017194.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_natto_BEST195_uid183001/NC_017196.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_natto_BEST195_uid183001/NC_017196.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_natto_BEST195_uid183001/NC_017196.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_spizizenii_TU_B_10_uid73967/NC_016047.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_spizizenii_TU_B_10_uid73967/NC_016047.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_spizizenii_TU_B_10_uid73967/NC_016047.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_spizizenii_W23_uid51879/NC_014479.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_spizizenii_W23_uid51879/NC_014479.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_subtilis_spizizenii_W23_uid51879/NC_014479.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Al_Hakam_uid58795/NC_008598.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Al_Hakam_uid58795/NC_008598.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Al_Hakam_uid58795/NC_008598.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Al_Hakam_uid58795/NC_008600.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Al_Hakam_uid58795/NC_008600.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Al_Hakam_uid58795/NC_008600.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_BMB171_uid49135/NC_014171.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_BMB171_uid49135/NC_014171.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_BMB171_uid49135/NC_014171.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_BMB171_uid49135/NC_014172.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_BMB171_uid49135/NC_014172.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_BMB171_uid49135/NC_014172.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018877.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018877.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018877.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018878.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018878.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018878.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018879.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018879.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018879.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018880.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018880.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018880.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018881.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018881.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018881.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018882.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018882.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018882.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018883.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018883.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018883.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018884.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018884.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018884.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018885.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018885.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018885.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018886.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018886.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_Bt407_uid177931/NC_018886.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018486.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018486.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018486.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018487.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018487.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018487.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018488.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018488.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018488.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018489.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018489.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018489.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018490.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018490.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018490.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018500.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018500.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018500.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018501.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018501.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018501.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018502.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018502.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018502.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018503.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018503.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_771_uid173374/NC_018503.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018508.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018508.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018508.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018509.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018509.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018509.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018510.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018510.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018510.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018517.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018517.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_HD_789_uid173860/NC_018517.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018684.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018684.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018684.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018685.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018685.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018685.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018686.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018686.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018686.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018687.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018687.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018687.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018688.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018688.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018688.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018689.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018689.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018689.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018693.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018693.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018693.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018694.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018694.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_MC28_uid176369/NC_018694.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_020124.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_020124.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_020124.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022873.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022873.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022873.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022874.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022874.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022874.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022875.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022875.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022875.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022876.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022876.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022876.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022877.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022877.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022877.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022882.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022882.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_YBT_1518_uid229419/NC_022882.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020376.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020376.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020376.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020377.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020377.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020377.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020378.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020378.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020378.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020379.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020379.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020379.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020380.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020380.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020380.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020381.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020381.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020381.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020382.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020382.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020382.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020383.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020383.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020383.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020384.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020384.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020384.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020385.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020385.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020385.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020390.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020390.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020390.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020391.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020391.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020391.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020392.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020392.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020392.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020393.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020393.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020393.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020394.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020394.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_IS5056_uid190186/NC_020394.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017202.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017202.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017202.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017203.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017203.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017203.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017204.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017204.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017204.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017205.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017205.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017205.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017206.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017206.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017206.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017207.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017207.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017207.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017208.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017208.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017208.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017209.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017209.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017209.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017210.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017210.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017210.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017211.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017211.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017211.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017212.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017212.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_chinensis_CT_43_uid158151/NC_017212.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_finitimus_YBT_020_uid158875/NC_017199.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_finitimus_YBT_020_uid158875/NC_017199.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_finitimus_YBT_020_uid158875/NC_017199.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_finitimus_YBT_020_uid158875/NC_017200.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_finitimus_YBT_020_uid158875/NC_017200.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_finitimus_YBT_020_uid158875/NC_017200.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_finitimus_YBT_020_uid158875/NC_017201.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_finitimus_YBT_020_uid158875/NC_017201.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_finitimus_YBT_020_uid158875/NC_017201.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_konkukian_97_27_uid58089/NC_005957.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_konkukian_97_27_uid58089/NC_005957.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_konkukian_97_27_uid58089/NC_005957.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_konkukian_97_27_uid58089/NC_006578.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_konkukian_97_27_uid58089/NC_006578.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_konkukian_97_27_uid58089/NC_006578.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020238.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020238.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020238.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020239.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020239.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020239.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020240.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020240.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020240.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020241.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020241.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020241.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020242.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020242.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020242.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020243.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020243.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020243.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020249.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020249.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020249.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020250.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020250.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_thuringiensis_serovar_kurstaki_HD73_uid189188/NC_020250.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_toyonensis_BCT_7112_uid227218/NC_022781.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_toyonensis_BCT_7112_uid227218/NC_022781.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_toyonensis_BCT_7112_uid227218/NC_022781.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_toyonensis_BCT_7112_uid227218/NC_022782.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_toyonensis_BCT_7112_uid227218/NC_022782.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_toyonensis_BCT_7112_uid227218/NC_022782.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_toyonensis_BCT_7112_uid227218/NC_022783.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_toyonensis_BCT_7112_uid227218/NC_022783.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_toyonensis_BCT_7112_uid227218/NC_022783.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010180.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010180.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010180.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010181.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010181.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010181.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010182.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010182.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010182.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010183.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010183.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010183.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010184.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010184.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacillus_weihenstephanensis_KBAB4_uid58315/NC_010184.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteriovorax_marinus_SJ_uid82341/NC_016620.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteriovorax_marinus_SJ_uid82341/NC_016620.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteriovorax_marinus_SJ_uid82341/NC_016620.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteriovorax_marinus_SJ_uid82341/NC_019100.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteriovorax_marinus_SJ_uid82341/NC_019100.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteriovorax_marinus_SJ_uid82341/NC_019100.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_CF50_uid222805/NC_022526.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_CF50_uid222805/NC_022526.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_CF50_uid222805/NC_022526.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_638R_uid84217/NC_016776.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_638R_uid84217/NC_016776.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_638R_uid84217/NC_016776.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_NCTC_9343_uid57639/NC_003228.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_NCTC_9343_uid57639/NC_003228.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_NCTC_9343_uid57639/NC_003228.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_NCTC_9343_uid57639/NC_006873.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_NCTC_9343_uid57639/NC_006873.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_NCTC_9343_uid57639/NC_006873.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_YCH46_uid58195/NC_006297.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_YCH46_uid58195/NC_006297.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_YCH46_uid58195/NC_006297.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_YCH46_uid58195/NC_006347.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_YCH46_uid58195/NC_006347.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_fragilis_YCH46_uid58195/NC_006347.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_helcogenes_P_36_108_uid62135/NC_014933.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_helcogenes_P_36_108_uid62135/NC_014933.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_helcogenes_P_36_108_uid62135/NC_014933.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015164.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015164.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015164.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015165.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015165.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015165.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015166.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015166.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015166.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015168.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015168.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_salanitronis_DSM_18170_uid63269/NC_015168.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_thetaiotaomicron_VPI_5482_uid62913/NC_004663.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_thetaiotaomicron_VPI_5482_uid62913/NC_004663.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_thetaiotaomicron_VPI_5482_uid62913/NC_004663.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_thetaiotaomicron_VPI_5482_uid62913/NC_004703.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_thetaiotaomicron_VPI_5482_uid62913/NC_004703.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_thetaiotaomicron_VPI_5482_uid62913/NC_004703.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_uniformis_uid13130/NC_006373.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_uniformis_uid13130/NC_006373.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_uniformis_uid13130/NC_006373.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_vulgatus_ATCC_8482_uid58253/NC_009614.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_vulgatus_ATCC_8482_uid58253/NC_009614.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_vulgatus_ATCC_8482_uid58253/NC_009614.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_xylanisolvens_XB1A_uid197168/NC_021017.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_xylanisolvens_XB1A_uid197168/NC_021017.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bacteroides_xylanisolvens_XB1A_uid197168/NC_021017.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_australis_Aust_NH1_uid189950/NC_020300.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_australis_Aust_NH1_uid189950/NC_020300.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_australis_Aust_NH1_uid189950/NC_020300.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_bacilliformis_KC583_uid58533/NC_008783.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_bacilliformis_KC583_uid58533/NC_008783.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_bacilliformis_KC583_uid58533/NC_008783.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_clarridgeiae_73_uid62131/NC_014932.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_clarridgeiae_73_uid62131/NC_014932.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_clarridgeiae_73_uid62131/NC_014932.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_grahamii_as4aup_uid59405/NC_012846.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_grahamii_as4aup_uid59405/NC_012846.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_grahamii_as4aup_uid59405/NC_012846.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_grahamii_as4aup_uid59405/NC_012847.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_grahamii_as4aup_uid59405/NC_012847.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_grahamii_as4aup_uid59405/NC_012847.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_henselae_Houston_1_uid57745/NC_005956.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_henselae_Houston_1_uid57745/NC_005956.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_henselae_Houston_1_uid57745/NC_005956.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_quintana_RM_11_uid174512/NC_018533.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_quintana_RM_11_uid174512/NC_018533.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_quintana_RM_11_uid174512/NC_018533.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_quintana_Toulouse_uid57635/NC_005955.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_quintana_Toulouse_uid57635/NC_005955.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_quintana_Toulouse_uid57635/NC_005955.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_tribocorum_CIP_105476_uid59129/NC_010160.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_tribocorum_CIP_105476_uid59129/NC_010160.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_tribocorum_CIP_105476_uid59129/NC_010160.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_tribocorum_CIP_105476_uid59129/NC_010161.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_tribocorum_CIP_105476_uid59129/NC_010161.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_tribocorum_CIP_105476_uid59129/NC_010161.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_vinsonii_berkhoffii_Winnie_uid189951/NC_020301.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_vinsonii_berkhoffii_Winnie_uid189951/NC_020301.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bartonella_vinsonii_berkhoffii_Winnie_uid189951/NC_020301.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Baumannia_cicadellinicola_Hc__Homalodisca_coagulata__uid58111/NC_007984.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Baumannia_cicadellinicola_Hc__Homalodisca_coagulata__uid58111/NC_007984.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Baumannia_cicadellinicola_Hc__Homalodisca_coagulata__uid58111/NC_007984.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bdellovibrio_bacteriovorus_HD100_uid61595/NC_005363.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bdellovibrio_bacteriovorus_HD100_uid61595/NC_005363.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bdellovibrio_bacteriovorus_HD100_uid61595/NC_005363.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bdellovibrio_bacteriovorus_Tiberius_uid182482/NC_019567.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bdellovibrio_bacteriovorus_Tiberius_uid182482/NC_019567.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bdellovibrio_bacteriovorus_Tiberius_uid182482/NC_019567.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bdellovibrio_exovorus_JSS_uid194119/NC_020813.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bdellovibrio_exovorus_JSS_uid194119/NC_020813.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bdellovibrio_exovorus_JSS_uid194119/NC_020813.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beijerinckia_indica_ATCC_9039_uid59057/NC_010578.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beijerinckia_indica_ATCC_9039_uid59057/NC_010578.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beijerinckia_indica_ATCC_9039_uid59057/NC_010578.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beijerinckia_indica_ATCC_9039_uid59057/NC_010580.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beijerinckia_indica_ATCC_9039_uid59057/NC_010580.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beijerinckia_indica_ATCC_9039_uid59057/NC_010580.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beijerinckia_indica_ATCC_9039_uid59057/NC_010581.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beijerinckia_indica_ATCC_9039_uid59057/NC_010581.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beijerinckia_indica_ATCC_9039_uid59057/NC_010581.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Belliella_baltica_DSM_15883_uid168182/NC_018010.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Belliella_baltica_DSM_15883_uid168182/NC_018010.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Belliella_baltica_DSM_15883_uid168182/NC_018010.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beutenbergia_cavernae_DSM_12333_uid59047/NC_012669.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beutenbergia_cavernae_DSM_12333_uid59047/NC_012669.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Beutenbergia_cavernae_DSM_12333_uid59047/NC_012669.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bibersteinia_trehalosi_192_uid193709/NC_020515.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bibersteinia_trehalosi_192_uid193709/NC_020515.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bibersteinia_trehalosi_192_uid193709/NC_020515.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_adolescentis_ATCC_15703_uid58559/NC_008618.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_adolescentis_ATCC_15703_uid58559/NC_008618.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_adolescentis_ATCC_15703_uid58559/NC_008618.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_ATCC_25527_uid162513/NC_017834.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_ATCC_25527_uid162513/NC_017834.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_ATCC_25527_uid162513/NC_017834.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_AD011_uid58911/NC_011835.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_AD011_uid58911/NC_011835.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_AD011_uid58911/NC_011835.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_ATCC_27673_uid222803/NC_022523.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_ATCC_27673_uid222803/NC_022523.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_ATCC_27673_uid222803/NC_022523.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_B420_uid163691/NC_017866.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_B420_uid163691/NC_017866.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_B420_uid163691/NC_017866.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_BB_12_uid158871/NC_017214.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_BB_12_uid158871/NC_017214.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_BB_12_uid158871/NC_017214.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_BLC1_uid158867/NC_017216.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_BLC1_uid158867/NC_017216.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_BLC1_uid158867/NC_017216.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_Bi_07_uid163693/NC_017867.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_Bi_07_uid163693/NC_017867.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_Bi_07_uid163693/NC_017867.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_Bl12_uid210081/NC_021593.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_Bl12_uid210081/NC_021593.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_Bl12_uid210081/NC_021593.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_Bl_04_uid59359/NC_012814.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_Bl_04_uid59359/NC_012814.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_Bl_04_uid59359/NC_012814.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_CNCM_I_2494_uid158869/NC_017215.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_CNCM_I_2494_uid158869/NC_017215.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_CNCM_I_2494_uid158869/NC_017215.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_DSM_10140_uid59357/NC_012815.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_DSM_10140_uid59357/NC_012815.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_DSM_10140_uid59357/NC_012815.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_V9_uid158865/NC_017217.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_V9_uid158865/NC_017217.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_animalis_lactis_V9_uid158865/NC_017217.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_asteroides_PRL2011_uid176921/NC_018720.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_asteroides_PRL2011_uid176921/NC_018720.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_asteroides_PRL2011_uid176921/NC_018720.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_bifidum_BGN4_uid167988/NC_017999.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_bifidum_BGN4_uid167988/NC_017999.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_bifidum_BGN4_uid167988/NC_017999.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_bifidum_PRL2010_uid59883/NC_014638.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_bifidum_PRL2010_uid59883/NC_014638.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_bifidum_PRL2010_uid59883/NC_014638.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_bifidum_S17_uid59545/NC_014616.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_bifidum_S17_uid59545/NC_014616.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_bifidum_S17_uid59545/NC_014616.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_breve_ACS_071_V_Sch8b_uid158863/NC_017218.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_breve_ACS_071_V_Sch8b_uid158863/NC_017218.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_breve_ACS_071_V_Sch8b_uid158863/NC_017218.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_breve_UCC2003_uid193702/NC_020517.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_breve_UCC2003_uid193702/NC_020517.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_breve_UCC2003_uid193702/NC_020517.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_dentium_Bd1_uid43091/NC_013714.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_dentium_Bd1_uid43091/NC_013714.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_dentium_Bd1_uid43091/NC_013714.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_BBMN68_uid60163/NC_014656.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_BBMN68_uid60163/NC_014656.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_BBMN68_uid60163/NC_014656.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_DJO10A_uid58833/NC_004252.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_DJO10A_uid58833/NC_004252.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_DJO10A_uid58833/NC_004252.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_DJO10A_uid58833/NC_004253.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_DJO10A_uid58833/NC_004253.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_DJO10A_uid58833/NC_004253.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_DJO10A_uid58833/NC_010816.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_DJO10A_uid58833/NC_010816.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_DJO10A_uid58833/NC_010816.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_F8_uid197184/NC_021008.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_F8_uid197184/NC_021008.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_F8_uid197184/NC_021008.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_JCM_1217_uid62695/NC_015067.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_JCM_1217_uid62695/NC_015067.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_JCM_1217_uid62695/NC_015067.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_JDM301_uid49131/NC_014169.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_JDM301_uid49131/NC_014169.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_JDM301_uid49131/NC_014169.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_KACC_91563_uid158861/NC_017220.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_KACC_91563_uid158861/NC_017220.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_KACC_91563_uid158861/NC_017220.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_KACC_91563_uid158861/NC_017221.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_KACC_91563_uid158861/NC_017221.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_KACC_91563_uid158861/NC_017221.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_KACC_91563_uid158861/NC_017222.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_KACC_91563_uid158861/NC_017222.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_KACC_91563_uid158861/NC_017222.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_NCC2705_uid57939/NC_004307.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_NCC2705_uid57939/NC_004307.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_NCC2705_uid57939/NC_004307.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_NCC2705_uid57939/NC_004943.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_NCC2705_uid57939/NC_004943.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_NCC2705_uid57939/NC_004943.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_157F_uid62693/NC_015052.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_157F_uid62693/NC_015052.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_157F_uid62693/NC_015052.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_157F_uid62693/NC_015053.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_157F_uid62693/NC_015053.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_157F_uid62693/NC_015053.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_157F_uid62693/NC_015066.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_157F_uid62693/NC_015066.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_157F_uid62693/NC_015066.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_ATCC_15697_uid159865/NC_017219.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_ATCC_15697_uid159865/NC_017219.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_ATCC_15697_uid159865/NC_017219.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_ATCC_15697_uid58677/NC_011593.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_ATCC_15697_uid58677/NC_011593.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_longum_infantis_ATCC_15697_uid58677/NC_011593.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_thermophilum_RBL67_uid193770/NC_020546.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_thermophilum_RBL67_uid193770/NC_020546.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bifidobacterium_thermophilum_RBL67_uid193770/NC_020546.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blastococcus_saxobsidens_DD2_uid89391/NC_016943.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blastococcus_saxobsidens_DD2_uid89391/NC_016943.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blastococcus_saxobsidens_DD2_uid89391/NC_016943.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blaberus_giganteus__uid165873/NC_017924.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blaberus_giganteus__uid165873/NC_017924.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blaberus_giganteus__uid165873/NC_017924.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blaberus_giganteus__uid165873/NC_017925.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blaberus_giganteus__uid165873/NC_017925.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blaberus_giganteus__uid165873/NC_017925.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blatta_orientalis__Tarazona_uid188115/NC_020195.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blatta_orientalis__Tarazona_uid188115/NC_020195.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blatta_orientalis__Tarazona_uid188115/NC_020195.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blatta_orientalis__Tarazona_uid188115/NC_020196.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blatta_orientalis__Tarazona_uid188115/NC_020196.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blatta_orientalis__Tarazona_uid188115/NC_020196.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blattella_germanica__Bge_uid41533/NC_013454.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blattella_germanica__Bge_uid41533/NC_013454.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blattella_germanica__Bge_uid41533/NC_013454.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blattella_germanica__Bge_uid41533/NC_015679.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blattella_germanica__Bge_uid41533/NC_015679.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Blattella_germanica__Bge_uid41533/NC_015679.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Cryptocercus_punctulatus__Cpu_uid81083/NC_016598.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Cryptocercus_punctulatus__Cpu_uid81083/NC_016598.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Cryptocercus_punctulatus__Cpu_uid81083/NC_016598.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Cryptocercus_punctulatus__Cpu_uid81083/NC_016621.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Cryptocercus_punctulatus__Cpu_uid81083/NC_016621.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Cryptocercus_punctulatus__Cpu_uid81083/NC_016621.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Mastotermes_darwiniensis__MADAR_uid77127/NC_016146.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Mastotermes_darwiniensis__MADAR_uid77127/NC_016146.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Mastotermes_darwiniensis__MADAR_uid77127/NC_016146.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Mastotermes_darwiniensis__MADAR_uid77127/NC_016150.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Mastotermes_darwiniensis__MADAR_uid77127/NC_016150.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Mastotermes_darwiniensis__MADAR_uid77127/NC_016150.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Nauphoeta_cinerea__uid222815/NC_022550.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Nauphoeta_cinerea__uid222815/NC_022550.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Nauphoeta_cinerea__uid222815/NC_022550.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Nauphoeta_cinerea__uid222815/NC_022551.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Nauphoeta_cinerea__uid222815/NC_022551.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Nauphoeta_cinerea__uid222815/NC_022551.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Panesthia_angustipennis_spadica__BPAA_uid193717/NC_020510.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Panesthia_angustipennis_spadica__BPAA_uid193717/NC_020510.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Panesthia_angustipennis_spadica__BPAA_uid193717/NC_020510.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Periplaneta_americana__BPLAN_uid41287/NC_013418.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Periplaneta_americana__BPLAN_uid41287/NC_013418.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Periplaneta_americana__BPLAN_uid41287/NC_013418.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Periplaneta_americana__BPLAN_uid41287/NC_013419.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Periplaneta_americana__BPLAN_uid41287/NC_013419.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Blattabacterium__Periplaneta_americana__BPLAN_uid41287/NC_013419.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_avium_197N_uid61563/NC_010645.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_avium_197N_uid61563/NC_010645.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_avium_197N_uid61563/NC_010645.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_bronchiseptica_253_uid178913/NC_019382.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_bronchiseptica_253_uid178913/NC_019382.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_bronchiseptica_253_uid178913/NC_019382.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_bronchiseptica_MO149_uid177517/NC_018829.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_bronchiseptica_MO149_uid177517/NC_018829.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_bronchiseptica_MO149_uid177517/NC_018829.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_bronchiseptica_RB50_uid57613/NC_002927.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_bronchiseptica_RB50_uid57613/NC_002927.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_bronchiseptica_RB50_uid57613/NC_002927.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_12822_uid57615/NC_002928.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_12822_uid57615/NC_002928.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_12822_uid57615/NC_002928.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_18323_uid175569/NC_018518.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_18323_uid175569/NC_018518.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_18323_uid175569/NC_018518.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_Bpp5_uid177516/NC_018828.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_Bpp5_uid177516/NC_018828.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_Bpp5_uid177516/NC_018828.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_Bpp5_uid177516/NC_018830.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_Bpp5_uid177516/NC_018830.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_parapertussis_Bpp5_uid177516/NC_018830.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_pertussis_CS_uid158859/NC_017223.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_pertussis_CS_uid158859/NC_017223.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_pertussis_CS_uid158859/NC_017223.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_pertussis_Tohama_I_uid57617/NC_002929.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_pertussis_Tohama_I_uid57617/NC_002929.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_pertussis_Tohama_I_uid57617/NC_002929.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_petrii_uid61631/NC_010170.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_petrii_uid61631/NC_010170.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bordetella_petrii_uid61631/NC_010170.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_HLJ01_uid177930/NC_018887.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_HLJ01_uid177930/NC_018887.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_HLJ01_uid177930/NC_018887.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017224.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017224.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017224.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017225.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017225.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017225.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017226.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017226.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017226.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017227.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017227.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017227.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017228.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017228.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017228.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017229.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017229.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017229.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017230.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017230.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017230.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017231.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017231.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017231.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017232.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017232.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017232.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017233.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017233.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017233.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017234.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017234.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017234.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017235.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017235.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017235.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017236.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017236.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017236.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017237.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017237.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017237.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017238.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017238.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017238.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017239.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017239.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017239.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017240.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017240.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017240.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017241.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017241.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid159867/NC_017241.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008273.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008273.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008273.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008274.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008274.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008274.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008277.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008277.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008277.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008564.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008564.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008564.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008565.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008565.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008565.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008566.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008566.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008566.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008567.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008567.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008567.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008568.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008568.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008568.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008569.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008569.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NC_008569.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NT_167350.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NT_167350.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NT_167350.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NT_167351.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NT_167351.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NT_167351.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NT_167352.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NT_167352.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_afzelii_PKo_uid58653/NT_167352.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015903.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015903.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015903.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015904.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015904.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015904.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015905.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015905.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015905.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015906.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015906.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015906.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015907.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015907.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015907.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015908.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015908.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015908.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015909.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015909.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015909.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015910.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015910.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015910.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015911.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015911.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015911.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015915.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015915.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015915.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015916.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015916.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015916.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015917.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015917.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015917.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015918.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015918.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015918.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015919.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015919.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015919.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015920.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015920.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015920.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015921.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015921.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015921.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015922.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015922.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_bissettii_DN127_uid71231/NC_015922.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000948.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000948.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000948.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000949.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000949.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000949.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000950.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000950.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000950.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000951.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000951.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000951.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000952.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000952.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000952.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000953.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000953.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000953.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000954.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000954.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000954.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000955.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000955.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000955.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000956.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000956.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000956.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000957.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000957.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_000957.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001318.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001318.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001318.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001849.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001849.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001849.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001850.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001850.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001850.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001851.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001851.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001851.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001852.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001852.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001852.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001853.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001853.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001853.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001854.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001854.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001854.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001855.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001855.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001855.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001856.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001856.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001856.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001857.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001857.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001857.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001903.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001903.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001903.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001904.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001904.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_B31_uid57581/NC_001904.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_CA382_uid214794/NC_022048.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_CA382_uid214794/NC_022048.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_CA382_uid214794/NC_022048.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_013129.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_013129.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_013129.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017393.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017393.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017393.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017394.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017394.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017394.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017395.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017395.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017395.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017396.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017396.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017396.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017397.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017397.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017397.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017403.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017403.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017403.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017404.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017404.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017404.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017405.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017405.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017405.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017406.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017406.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017406.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017407.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017407.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017407.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017408.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017408.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017408.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017409.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017409.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017409.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017410.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017410.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017410.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017411.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017411.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017411.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017412.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017412.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017412.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017413.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017413.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017413.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017425.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017425.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017425.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017426.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017426.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017426.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017427.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017427.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017427.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017428.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017428.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_JD1_uid161197/NC_017428.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_013130.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_013130.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_013130.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017398.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017398.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017398.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017399.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017399.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017399.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017400.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017400.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017400.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017401.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017401.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017401.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017402.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017402.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017402.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017414.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017414.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017414.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017415.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017415.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017415.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017416.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017416.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017416.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017417.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017417.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017417.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017418.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017418.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017418.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017419.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017419.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017419.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017420.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017420.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017420.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017421.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017421.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017421.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017422.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017422.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017422.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017423.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017423.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017423.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017424.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017424.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_N40_uid161241/NC_017424.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011720.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011720.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011720.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011722.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011722.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011722.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011724.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011724.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011724.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011728.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011728.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011728.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011731.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011731.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011731.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011735.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011735.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011735.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011736.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011736.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011736.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011778.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011778.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011778.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011779.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011779.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011779.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011780.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011780.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011780.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011781.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011781.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011781.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011782.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011782.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011782.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011783.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011783.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011783.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011784.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011784.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011784.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011785.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011785.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_burgdorferi_ZS7_uid59429/NC_011785.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017774.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017774.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017774.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017775.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017775.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017775.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017776.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017776.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017776.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017777.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017777.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017777.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017778.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017778.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017778.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017779.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017779.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017779.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017780.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017780.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017780.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017781.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017781.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017781.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017782.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017782.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017782.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017783.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017783.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017783.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017784.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017784.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017784.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017785.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017785.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017785.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017786.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017786.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017786.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017787.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017787.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017787.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017788.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017788.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017788.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017789.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017789.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017789.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017794.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017794.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017794.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017795.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017795.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017795.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017796.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017796.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017796.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017797.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017797.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017797.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017798.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017798.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017798.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017799.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017799.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017799.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017800.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017800.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017800.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017801.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017801.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017801.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017802.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017802.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017802.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017808.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017808.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017808.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017809.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017809.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017809.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017810.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017810.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017810.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017811.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017811.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017811.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017812.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017812.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017812.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017813.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017813.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017813.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017814.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017814.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017814.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017815.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017815.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017815.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017816.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017816.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017816.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017817.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017817.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017817.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017818.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017818.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017818.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017819.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017819.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017819.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017820.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017820.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017820.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017821.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017821.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017821.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017822.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017822.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_crocidurae_Achema_uid162335/NC_017822.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011224.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011224.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011224.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011226.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011226.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011226.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011229.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011229.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011229.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011245.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011245.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011245.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011247.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011247.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011247.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011248.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011248.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011248.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011249.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011249.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011249.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011250.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011250.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011250.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011251.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011251.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011251.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011254.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011254.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011254.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011256.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011256.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011256.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011257.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011257.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011257.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011259.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011259.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011259.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011261.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011261.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011261.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011262.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011262.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011262.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011264.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011264.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011264.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011265.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011265.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_duttonii_Ly_uid58791/NC_011265.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_BgVir_uid162165/NC_017717.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_BgVir_uid162165/NC_017717.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_BgVir_uid162165/NC_017717.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_BgVir_uid162165/NC_017725.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_BgVir_uid162165/NC_017725.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_BgVir_uid162165/NC_017725.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_BgVir_uid162165/NC_017804.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_BgVir_uid162165/NC_017804.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_BgVir_uid162165/NC_017804.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_NMJW1_uid177081/NC_018747.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_NMJW1_uid177081/NC_018747.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_NMJW1_uid177081/NC_018747.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_PBi_uid58125/NC_006128.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_PBi_uid58125/NC_006128.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_PBi_uid58125/NC_006128.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_PBi_uid58125/NC_006129.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_PBi_uid58125/NC_006129.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_PBi_uid58125/NC_006129.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_PBi_uid58125/NC_006156.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_PBi_uid58125/NC_006156.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_garinii_PBi_uid58125/NC_006156.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NC_010673.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NC_010673.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NC_010673.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187136.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187136.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187136.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187137.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187137.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187137.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187138.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187138.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187138.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187139.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187139.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187139.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187140.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187140.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187140.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187141.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187141.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187141.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187142.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187142.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187142.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187143.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187143.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187143.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187144.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187144.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187144.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187145.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187145.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_hermsii_DAH_uid59225/NT_187145.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_miyamotoi_LB_2001_uid215233/NC_022079.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_miyamotoi_LB_2001_uid215233/NC_022079.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_miyamotoi_LB_2001_uid215233/NC_022079.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011244.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011244.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011244.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011246.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011246.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011246.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011252.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011252.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011252.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011253.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011253.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011253.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011255.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011255.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011255.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011258.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011258.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011258.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011260.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011260.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011260.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011263.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011263.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_recurrentis_A1_uid58793/NC_011263.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_turicatae_91E135_uid58311/NC_008710.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_turicatae_91E135_uid58311/NC_008710.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_turicatae_91E135_uid58311/NC_008710.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012128.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012128.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012128.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012129.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012129.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012129.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012130.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012130.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012130.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012131.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012131.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012131.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012133.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012133.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012133.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012166.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012166.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012166.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012169.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012169.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012169.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012177.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012177.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012177.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012180.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012180.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012180.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012185.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012185.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012185.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012204.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012204.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Borrelia_valaisiana_VS116_uid54823/NC_012204.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachybacterium_faecium_DSM_4810_uid58649/NC_013172.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachybacterium_faecium_DSM_4810_uid58649/NC_013172.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachybacterium_faecium_DSM_4810_uid58649/NC_013172.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_hyodysenteriae_WA1_uid59291/NC_012225.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_hyodysenteriae_WA1_uid59291/NC_012225.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_hyodysenteriae_WA1_uid59291/NC_012225.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_hyodysenteriae_WA1_uid59291/NC_012226.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_hyodysenteriae_WA1_uid59291/NC_012226.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_hyodysenteriae_WA1_uid59291/NC_012226.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_intermedia_PWS_A_uid158369/NC_017242.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_intermedia_PWS_A_uid158369/NC_017242.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_intermedia_PWS_A_uid158369/NC_017242.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_intermedia_PWS_A_uid158369/NC_017243.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_intermedia_PWS_A_uid158369/NC_017243.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_intermedia_PWS_A_uid158369/NC_017243.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_murdochii_DSM_12563_uid48819/NC_014150.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_murdochii_DSM_12563_uid48819/NC_014150.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_murdochii_DSM_12563_uid48819/NC_014150.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_95_1000_uid50609/NC_014330.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_95_1000_uid50609/NC_014330.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_95_1000_uid50609/NC_014330.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_B2904_uid175255/NC_018607.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_B2904_uid175255/NC_018607.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_B2904_uid175255/NC_018607.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_P43_6_78_uid184077/NC_019908.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_P43_6_78_uid184077/NC_019908.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_P43_6_78_uid184077/NC_019908.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_WesB_uid175256/NC_018604.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_WesB_uid175256/NC_018604.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brachyspira_pilosicoli_WesB_uid175256/NC_018604.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_BTAi1_uid58505/NC_009475.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_BTAi1_uid58505/NC_009475.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_BTAi1_uid58505/NC_009475.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_BTAi1_uid58505/NC_009485.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_BTAi1_uid58505/NC_009485.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_BTAi1_uid58505/NC_009485.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_ORS_278_uid58941/NC_009445.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_ORS_278_uid58941/NC_009445.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_ORS_278_uid58941/NC_009445.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_S23321_uid158167/NC_017082.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_S23321_uid158167/NC_017082.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_S23321_uid158167/NC_017082.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_japonicum_USDA_110_uid57599/NC_004463.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_japonicum_USDA_110_uid57599/NC_004463.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_japonicum_USDA_110_uid57599/NC_004463.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_japonicum_USDA_6_uid158851/NC_017249.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_japonicum_USDA_6_uid158851/NC_017249.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Bradyrhizobium_japonicum_USDA_6_uid158851/NC_017249.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brevibacillus_brevis_NBRC_100599_uid59175/NC_012491.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brevibacillus_brevis_NBRC_100599_uid59175/NC_012491.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brevibacillus_brevis_NBRC_100599_uid59175/NC_012491.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brevundimonas_subvibrioides_ATCC_15264_uid42117/NC_014375.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brevundimonas_subvibrioides_ATCC_15264_uid42117/NC_014375.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brevundimonas_subvibrioides_ATCC_15264_uid42117/NC_014375.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_A13334_uid83615/NC_016777.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_A13334_uid83615/NC_016777.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_A13334_uid83615/NC_016777.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_A13334_uid83615/NC_016795.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_A13334_uid83615/NC_016795.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_A13334_uid83615/NC_016795.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_S19_uid58873/NC_010740.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_S19_uid58873/NC_010740.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_S19_uid58873/NC_010740.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_S19_uid58873/NC_010742.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_S19_uid58873/NC_010742.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_S19_uid58873/NC_010742.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_bv__1_9_941_uid58019/NC_006932.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_bv__1_9_941_uid58019/NC_006932.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_bv__1_9_941_uid58019/NC_006932.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_bv__1_9_941_uid58019/NC_006933.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_bv__1_9_941_uid58019/NC_006933.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_abortus_bv__1_9_941_uid58019/NC_006933.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_ATCC_23365_uid59009/NC_010103.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_ATCC_23365_uid59009/NC_010103.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_ATCC_23365_uid59009/NC_010103.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_ATCC_23365_uid59009/NC_010104.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_ATCC_23365_uid59009/NC_010104.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_ATCC_23365_uid59009/NC_010104.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_HSK_A52141_uid83613/NC_016778.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_HSK_A52141_uid83613/NC_016778.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_HSK_A52141_uid83613/NC_016778.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_HSK_A52141_uid83613/NC_016796.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_HSK_A52141_uid83613/NC_016796.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_canis_HSK_A52141_uid83613/NC_016796.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE10759_12_uid229880/NC_022905.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE10759_12_uid229880/NC_022905.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE10759_12_uid229880/NC_022905.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE10759_12_uid229880/NC_022906.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE10759_12_uid229880/NC_022906.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE10759_12_uid229880/NC_022906.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE28753_12_uid229879/NC_022907.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE28753_12_uid229879/NC_022907.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE28753_12_uid229879/NC_022907.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE28753_12_uid229879/NC_022908.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE28753_12_uid229879/NC_022908.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ceti_TE28753_12_uid229879/NC_022908.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_ATCC_23457_uid59241/NC_012441.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_ATCC_23457_uid59241/NC_012441.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_ATCC_23457_uid59241/NC_012441.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_ATCC_23457_uid59241/NC_012442.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_ATCC_23457_uid59241/NC_012442.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_ATCC_23457_uid59241/NC_012442.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M28_uid158857/NC_017244.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M28_uid158857/NC_017244.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M28_uid158857/NC_017244.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M28_uid158857/NC_017245.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M28_uid158857/NC_017245.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M28_uid158857/NC_017245.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M5_90_uid158855/NC_017246.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M5_90_uid158855/NC_017246.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M5_90_uid158855/NC_017246.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M5_90_uid158855/NC_017247.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M5_90_uid158855/NC_017247.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_M5_90_uid158855/NC_017247.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_NI_uid158853/NC_017248.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_NI_uid158853/NC_017248.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_NI_uid158853/NC_017248.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_NI_uid158853/NC_017283.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_NI_uid158853/NC_017283.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_NI_uid158853/NC_017283.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_biovar_Abortus_2308_uid62937/NC_007618.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_biovar_Abortus_2308_uid62937/NC_007618.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_biovar_Abortus_2308_uid62937/NC_007618.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_biovar_Abortus_2308_uid62937/NC_007624.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_biovar_Abortus_2308_uid62937/NC_007624.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_biovar_Abortus_2308_uid62937/NC_007624.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_bv__1_16M_uid57735/NC_003317.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_bv__1_16M_uid57735/NC_003317.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_bv__1_16M_uid57735/NC_003317.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_bv__1_16M_uid57735/NC_003318.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_bv__1_16M_uid57735/NC_003318.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_melitensis_bv__1_16M_uid57735/NC_003318.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_microti_CCM_4915_uid59319/NC_013118.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_microti_CCM_4915_uid59319/NC_013118.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_microti_CCM_4915_uid59319/NC_013118.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_microti_CCM_4915_uid59319/NC_013119.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_microti_CCM_4915_uid59319/NC_013119.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_microti_CCM_4915_uid59319/NC_013119.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ovis_ATCC_25840_uid58113/NC_009504.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ovis_ATCC_25840_uid58113/NC_009504.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ovis_ATCC_25840_uid58113/NC_009504.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ovis_ATCC_25840_uid58113/NC_009505.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ovis_ATCC_25840_uid58113/NC_009505.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_ovis_ATCC_25840_uid58113/NC_009505.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_pinnipedialis_B2_94_uid71131/NC_015857.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_pinnipedialis_B2_94_uid71131/NC_015857.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_pinnipedialis_B2_94_uid71131/NC_015857.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_pinnipedialis_B2_94_uid71131/NC_015858.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_pinnipedialis_B2_94_uid71131/NC_015858.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_pinnipedialis_B2_94_uid71131/NC_015858.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid159871/NC_017250.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid159871/NC_017250.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid159871/NC_017250.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid159871/NC_017251.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid159871/NC_017251.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid159871/NC_017251.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid57927/NC_004310.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid57927/NC_004310.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid57927/NC_004310.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid57927/NC_004311.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid57927/NC_004311.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_1330_uid57927/NC_004311.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_ATCC_23445_uid59015/NC_010167.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_ATCC_23445_uid59015/NC_010167.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_ATCC_23445_uid59015/NC_010167.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_ATCC_23445_uid59015/NC_010169.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_ATCC_23445_uid59015/NC_010169.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_ATCC_23445_uid59015/NC_010169.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_VBI22_uid83617/NC_016775.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_VBI22_uid83617/NC_016775.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_VBI22_uid83617/NC_016775.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_VBI22_uid83617/NC_016797.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_VBI22_uid83617/NC_016797.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Brucella_suis_VBI22_uid83617/NC_016797.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_5A__Acyrthosiphon_pisum__uid59285/NC_011833.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_5A__Acyrthosiphon_pisum__uid59285/NC_011833.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_5A__Acyrthosiphon_pisum__uid59285/NC_011833.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_APS__Acyrthosiphon_pisum__uid57805/NC_002252.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_APS__Acyrthosiphon_pisum__uid57805/NC_002252.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_APS__Acyrthosiphon_pisum__uid57805/NC_002252.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_APS__Acyrthosiphon_pisum__uid57805/NC_002253.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_APS__Acyrthosiphon_pisum__uid57805/NC_002253.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_APS__Acyrthosiphon_pisum__uid57805/NC_002253.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_APS__Acyrthosiphon_pisum__uid57805/NC_002528.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_APS__Acyrthosiphon_pisum__uid57805/NC_002528.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_APS__Acyrthosiphon_pisum__uid57805/NC_002528.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ak__Acyrthosiphon_kondoi__uid158533/NC_017256.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ak__Acyrthosiphon_kondoi__uid158533/NC_017256.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ak__Acyrthosiphon_kondoi__uid158533/NC_017256.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ak__Acyrthosiphon_kondoi__uid158533/NC_017257.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ak__Acyrthosiphon_kondoi__uid158533/NC_017257.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ak__Acyrthosiphon_kondoi__uid158533/NC_017257.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ak__Acyrthosiphon_kondoi__uid158533/NC_017258.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ak__Acyrthosiphon_kondoi__uid158533/NC_017258.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ak__Acyrthosiphon_kondoi__uid158533/NC_017258.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Bp__Baizongia_pistaciae__uid57827/NC_004545.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Bp__Baizongia_pistaciae__uid57827/NC_004545.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Bp__Baizongia_pistaciae__uid57827/NC_004545.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Bp__Baizongia_pistaciae__uid57827/NC_004555.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Bp__Baizongia_pistaciae__uid57827/NC_004555.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Bp__Baizongia_pistaciae__uid57827/NC_004555.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Cc__Cinara_cedri__uid58579/NC_008513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Cc__Cinara_cedri__uid58579/NC_008513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Cc__Cinara_cedri__uid58579/NC_008513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Cc__Cinara_cedri__uid58579/NC_011878.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Cc__Cinara_cedri__uid58579/NC_011878.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Cc__Cinara_cedri__uid58579/NC_011878.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_JF98__Acyrthosiphon_pisum__uid158845/NC_017254.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_JF98__Acyrthosiphon_pisum__uid158845/NC_017254.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_JF98__Acyrthosiphon_pisum__uid158845/NC_017254.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_JF99__Acyrthosiphon_pisum__uid158847/NC_017253.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_JF99__Acyrthosiphon_pisum__uid158847/NC_017253.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_JF99__Acyrthosiphon_pisum__uid158847/NC_017253.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_LL01__Acyrthosiphon_pisum__uid158843/NC_017255.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_LL01__Acyrthosiphon_pisum__uid158843/NC_017255.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_LL01__Acyrthosiphon_pisum__uid158843/NC_017255.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Sg__Schizaphis_graminum__uid57913/NC_004061.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Sg__Schizaphis_graminum__uid57913/NC_004061.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Sg__Schizaphis_graminum__uid57913/NC_004061.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_TLW03__Acyrthosiphon_pisum__uid158849/NC_017252.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_TLW03__Acyrthosiphon_pisum__uid158849/NC_017252.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_TLW03__Acyrthosiphon_pisum__uid158849/NC_017252.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Tuc7__Acyrthosiphon_pisum__uid59283/NC_011834.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Tuc7__Acyrthosiphon_pisum__uid59283/NC_011834.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Tuc7__Acyrthosiphon_pisum__uid59283/NC_011834.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ua__Uroleucon_ambrosiae__uid158535/NC_017259.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ua__Uroleucon_ambrosiae__uid158535/NC_017259.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ua__Uroleucon_ambrosiae__uid158535/NC_017259.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ua__Uroleucon_ambrosiae__uid158535/NC_017260.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ua__Uroleucon_ambrosiae__uid158535/NC_017260.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ua__Uroleucon_ambrosiae__uid158535/NC_017260.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ua__Uroleucon_ambrosiae__uid158535/NC_017261.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ua__Uroleucon_ambrosiae__uid158535/NC_017261.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola_Ua__Uroleucon_ambrosiae__uid158535/NC_017261.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola__Cinara_tujafilina__uid68101/NC_015662.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola__Cinara_tujafilina__uid68101/NC_015662.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Buchnera_aphidicola__Cinara_tujafilina__uid68101/NC_015662.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_383_uid58073/NC_007509.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_383_uid58073/NC_007509.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_383_uid58073/NC_007509.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_383_uid58073/NC_007510.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_383_uid58073/NC_007510.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_383_uid58073/NC_007510.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_383_uid58073/NC_007511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_383_uid58073/NC_007511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_383_uid58073/NC_007511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1001_uid42975/NC_015136.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1001_uid42975/NC_015136.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1001_uid42975/NC_015136.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1001_uid42975/NC_015137.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1001_uid42975/NC_015137.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1001_uid42975/NC_015137.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014117.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014117.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014117.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014118.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014118.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014118.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014119.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014119.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014119.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014120.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014120.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1002_uid42523/NC_014120.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1003_uid46253/NC_014539.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1003_uid46253/NC_014539.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1003_uid46253/NC_014539.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1003_uid46253/NC_014540.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1003_uid46253/NC_014540.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_CCGE1003_uid46253/NC_014540.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017920.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017920.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017920.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017921.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017921.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017921.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017922.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017922.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017922.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017923.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017923.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_KJ006_uid165871/NC_017923.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021287.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021287.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021287.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021288.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021288.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021288.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021289.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021289.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021289.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021294.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021294.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021294.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021295.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021295.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_RPE64_uid205541/NC_021295.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016589.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016589.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016589.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016590.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016590.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016590.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016591.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016591.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016591.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016592.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016592.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016592.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016625.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016625.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016625.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016626.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016626.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_YI23_uid81081/NC_016626.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008385.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008385.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008385.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008390.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008390.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008390.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008391.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008391.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008391.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008392.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008392.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_AMMD_uid58303/NC_008392.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010551.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010551.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010551.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010552.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010552.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010552.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010553.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010553.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010553.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010557.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010557.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_ambifaria_MC40_6_uid58701/NC_010557.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_AU_1054_uid58371/NC_008060.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_AU_1054_uid58371/NC_008060.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_AU_1054_uid58371/NC_008060.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_AU_1054_uid58371/NC_008061.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_AU_1054_uid58371/NC_008061.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_AU_1054_uid58371/NC_008061.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_AU_1054_uid58371/NC_008062.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_AU_1054_uid58371/NC_008062.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_AU_1054_uid58371/NC_008062.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008542.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008542.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008542.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008543.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008543.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008543.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008544.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008544.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008544.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008545.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008545.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_HI2424_uid58369/NC_008545.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011000.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011000.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011000.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011001.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011001.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011001.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011002.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011002.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011002.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011003.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011003.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_J2315_uid57953/NC_011003.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_MC0_3_uid58769/NC_010508.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_MC0_3_uid58769/NC_010508.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_MC0_3_uid58769/NC_010508.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_MC0_3_uid58769/NC_010512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_MC0_3_uid58769/NC_010512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_MC0_3_uid58769/NC_010512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_MC0_3_uid58769/NC_010515.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_MC0_3_uid58769/NC_010515.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cenocepacia_MC0_3_uid58769/NC_010515.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cepacia_GG4_uid173858/NC_018513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cepacia_GG4_uid173858/NC_018513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cepacia_GG4_uid173858/NC_018513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cepacia_GG4_uid173858/NC_018514.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cepacia_GG4_uid173858/NC_018514.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_cepacia_GG4_uid173858/NC_018514.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015376.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015376.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015376.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015377.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015377.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015377.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015378.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015378.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015378.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015381.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015381.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015381.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015382.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015382.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015382.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015383.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015383.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_gladioli_BSR3_uid66301/NC_015383.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012718.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012718.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012718.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012720.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012720.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012720.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012721.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012721.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012721.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012723.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012723.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012723.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012724.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012724.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012724.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012725.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012725.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_glumae_BGR1_uid59397/NC_012725.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_ATCC_23344_uid57725/NC_006348.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_ATCC_23344_uid57725/NC_006348.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_ATCC_23344_uid57725/NC_006348.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_ATCC_23344_uid57725/NC_006349.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_ATCC_23344_uid57725/NC_006349.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_ATCC_23344_uid57725/NC_006349.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10229_uid58383/NC_008835.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10229_uid58383/NC_008835.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10229_uid58383/NC_008835.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10229_uid58383/NC_008836.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10229_uid58383/NC_008836.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10229_uid58383/NC_008836.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10247_uid58385/NC_009079.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10247_uid58385/NC_009079.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10247_uid58385/NC_009079.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10247_uid58385/NC_009080.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10247_uid58385/NC_009080.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_NCTC_10247_uid58385/NC_009080.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_SAVP1_uid58387/NC_008784.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_SAVP1_uid58387/NC_008784.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_SAVP1_uid58387/NC_008784.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_SAVP1_uid58387/NC_008785.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_SAVP1_uid58387/NC_008785.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_mallei_SAVP1_uid58387/NC_008785.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010070.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010070.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010070.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010084.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010084.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010084.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010086.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010086.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010086.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010087.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010087.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58697/NC_010087.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010801.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010801.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010801.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010802.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010802.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010802.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010804.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010804.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010804.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010805.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010805.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_multivorans_ATCC_17616_uid58909/NC_010805.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phenoliruptrix_BR3459a_uid176370/NC_018672.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phenoliruptrix_BR3459a_uid176370/NC_018672.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phenoliruptrix_BR3459a_uid176370/NC_018672.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phenoliruptrix_BR3459a_uid176370/NC_018695.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phenoliruptrix_BR3459a_uid176370/NC_018695.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phenoliruptrix_BR3459a_uid176370/NC_018695.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phenoliruptrix_BR3459a_uid176370/NC_018696.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phenoliruptrix_BR3459a_uid176370/NC_018696.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phenoliruptrix_BR3459a_uid176370/NC_018696.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010622.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010622.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010622.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010623.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010623.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010623.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010625.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010625.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010625.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010627.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010627.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phymatum_STM815_uid58699/NC_010627.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phytofirmans_PsJN_uid58729/NC_010676.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phytofirmans_PsJN_uid58729/NC_010676.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phytofirmans_PsJN_uid58729/NC_010676.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phytofirmans_PsJN_uid58729/NC_010679.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phytofirmans_PsJN_uid58729/NC_010679.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phytofirmans_PsJN_uid58729/NC_010679.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phytofirmans_PsJN_uid58729/NC_010681.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phytofirmans_PsJN_uid58729/NC_010681.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_phytofirmans_PsJN_uid58729/NC_010681.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1026b_uid162511/NC_017831.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1026b_uid162511/NC_017831.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1026b_uid162511/NC_017831.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1026b_uid162511/NC_017832.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1026b_uid162511/NC_017832.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1026b_uid162511/NC_017832.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1106a_uid58515/NC_009076.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1106a_uid58515/NC_009076.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1106a_uid58515/NC_009076.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1106a_uid58515/NC_009078.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1106a_uid58515/NC_009078.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1106a_uid58515/NC_009078.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1710b_uid58391/NC_007434.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1710b_uid58391/NC_007434.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1710b_uid58391/NC_007434.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1710b_uid58391/NC_007435.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1710b_uid58391/NC_007435.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_1710b_uid58391/NC_007435.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_668_uid58389/NC_009074.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_668_uid58389/NC_009074.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_668_uid58389/NC_009074.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_668_uid58389/NC_009075.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_668_uid58389/NC_009075.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_668_uid58389/NC_009075.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_BPC006_uid174460/NC_018527.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_BPC006_uid174460/NC_018527.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_BPC006_uid174460/NC_018527.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_BPC006_uid174460/NC_018529.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_BPC006_uid174460/NC_018529.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_BPC006_uid174460/NC_018529.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_K96243_uid57733/NC_006350.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_K96243_uid57733/NC_006350.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_K96243_uid57733/NC_006350.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_K96243_uid57733/NC_006351.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_K96243_uid57733/NC_006351.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_K96243_uid57733/NC_006351.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_MSHR305_uid213227/NC_021877.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_MSHR305_uid213227/NC_021877.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_MSHR305_uid213227/NC_021877.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_MSHR305_uid213227/NC_021884.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_MSHR305_uid213227/NC_021884.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_MSHR305_uid213227/NC_021884.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_MSHR346_uid55259/NC_012695.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_MSHR346_uid55259/NC_012695.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_MSHR346_uid55259/NC_012695.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_NCTC_13179_uid226109/NC_022658.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_NCTC_13179_uid226109/NC_022658.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_NCTC_13179_uid226109/NC_022658.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_NCTC_13179_uid226109/NC_022659.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_NCTC_13179_uid226109/NC_022659.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_pseudomallei_NCTC_13179_uid226109/NC_022659.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_rhizoxinica_HKI_454_uid60487/NC_014718.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_rhizoxinica_HKI_454_uid60487/NC_014718.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_rhizoxinica_HKI_454_uid60487/NC_014718.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_rhizoxinica_HKI_454_uid60487/NC_014722.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_rhizoxinica_HKI_454_uid60487/NC_014722.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_rhizoxinica_HKI_454_uid60487/NC_014722.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_rhizoxinica_HKI_454_uid60487/NC_014723.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_rhizoxinica_HKI_454_uid60487/NC_014723.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_rhizoxinica_HKI_454_uid60487/NC_014723.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_E264_uid58081/NC_007650.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_E264_uid58081/NC_007650.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_E264_uid58081/NC_007650.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_E264_uid58081/NC_007651.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_E264_uid58081/NC_007651.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_E264_uid58081/NC_007651.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_MSMB121_uid201037/NC_021173.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_MSMB121_uid201037/NC_021173.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_MSMB121_uid201037/NC_021173.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_MSMB121_uid201037/NC_021174.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_MSMB121_uid201037/NC_021174.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_thailandensis_MSMB121_uid201037/NC_021174.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009226.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009226.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009226.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009227.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009227.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009227.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009228.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009228.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009228.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009229.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009229.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009229.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009230.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009230.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009230.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009254.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009254.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009254.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009255.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009255.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009255.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009256.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009256.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_vietnamiensis_G4_uid58075/NC_009256.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_xenovorans_LB400_uid57823/NC_007951.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_xenovorans_LB400_uid57823/NC_007951.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_xenovorans_LB400_uid57823/NC_007951.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_xenovorans_LB400_uid57823/NC_007952.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_xenovorans_LB400_uid57823/NC_007952.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_xenovorans_LB400_uid57823/NC_007952.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_xenovorans_LB400_uid57823/NC_007953.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_xenovorans_LB400_uid57823/NC_007953.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Burkholderia_xenovorans_LB400_uid57823/NC_007953.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_fibrisolvens_uid197155/NC_021031.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_fibrisolvens_uid197155/NC_021031.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_fibrisolvens_uid197155/NC_021031.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014387.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014387.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014387.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014388.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014388.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014388.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014389.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014389.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014389.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014390.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014390.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Butyrivibrio_proteoclasticus_B316_uid51489/NC_014390.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_bescii_DSM_6725_uid59201/NC_012034.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_bescii_DSM_6725_uid59201/NC_012034.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_bescii_DSM_6725_uid59201/NC_012034.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_bescii_DSM_6725_uid59201/NC_012036.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_bescii_DSM_6725_uid59201/NC_012036.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_bescii_DSM_6725_uid59201/NC_012036.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_bescii_DSM_6725_uid59201/NC_012037.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_bescii_DSM_6725_uid59201/NC_012037.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_bescii_DSM_6725_uid59201/NC_012037.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_hydrothermalis_108_uid60157/NC_014652.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_hydrothermalis_108_uid60157/NC_014652.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_hydrothermalis_108_uid60157/NC_014652.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_kristjanssonii_177R1B_uid60393/NC_014719.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_kristjanssonii_177R1B_uid60393/NC_014719.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_kristjanssonii_177R1B_uid60393/NC_014719.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_kristjanssonii_177R1B_uid60393/NC_014721.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_kristjanssonii_177R1B_uid60393/NC_014721.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_kristjanssonii_177R1B_uid60393/NC_014721.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_kronotskyensis_2002_uid60491/NC_014720.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_kronotskyensis_2002_uid60491/NC_014720.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_kronotskyensis_2002_uid60491/NC_014720.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_lactoaceticus_6A_uid60575/NC_015949.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_lactoaceticus_6A_uid60575/NC_015949.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_lactoaceticus_6A_uid60575/NC_015949.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_obsidiansis_OB47_uid51501/NC_014392.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_obsidiansis_OB47_uid51501/NC_014392.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_obsidiansis_OB47_uid51501/NC_014392.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_owensensis_OL_uid60165/NC_014657.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_owensensis_OL_uid60165/NC_014657.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_owensensis_OL_uid60165/NC_014657.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_saccharolyticus_DSM_8903_uid58289/NC_009437.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_saccharolyticus_DSM_8903_uid58289/NC_009437.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldicellulosiruptor_saccharolyticus_DSM_8903_uid58289/NC_009437.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldilinea_aerophila_DSM_14535___NBRC_104270_uid158165/NC_017079.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldilinea_aerophila_DSM_14535___NBRC_104270_uid158165/NC_017079.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldilinea_aerophila_DSM_14535___NBRC_104270_uid158165/NC_017079.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldisericum_exile_AZM16c01_uid158173/NC_017096.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldisericum_exile_AZM16c01_uid158173/NC_017096.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caldisericum_exile_AZM16c01_uid158173/NC_017096.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calditerrivibrio_nitroreducens_DSM_19672_uid60821/NC_014749.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calditerrivibrio_nitroreducens_DSM_19672_uid60821/NC_014749.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calditerrivibrio_nitroreducens_DSM_19672_uid60821/NC_014749.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calditerrivibrio_nitroreducens_DSM_19672_uid60821/NC_014758.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calditerrivibrio_nitroreducens_DSM_19672_uid60821/NC_014758.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calditerrivibrio_nitroreducens_DSM_19672_uid60821/NC_014758.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019727.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019727.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019727.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019728.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019728.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019728.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019751.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019751.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019751.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019752.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019752.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_6303_uid183109/NC_019752.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_7507_uid182930/NC_019682.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_7507_uid182930/NC_019682.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Calothrix_PCC_7507_uid182930/NC_019682.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_03_427_uid226993/NC_022759.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_03_427_uid226993/NC_022759.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_03_427_uid226993/NC_022759.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_15_537360_uid226113/NC_022656.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_15_537360_uid226113/NC_022656.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_15_537360_uid226113/NC_022656.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_15_537360_uid226113/NC_022660.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_15_537360_uid226113/NC_022660.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_15_537360_uid226113/NC_022660.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_76339_uid217050/NC_022132.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_76339_uid217050/NC_022132.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_76339_uid217050/NC_022132.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_CVM_N29710_uid219322/NC_022347.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_CVM_N29710_uid219322/NC_022347.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_CVM_N29710_uid219322/NC_022347.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_CVM_N29710_uid219322/NC_022348.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_CVM_N29710_uid219322/NC_022348.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_CVM_N29710_uid219322/NC_022348.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_CVM_N29710_uid219322/NC_022355.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_CVM_N29710_uid219322/NC_022355.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_coli_CVM_N29710_uid219322/NC_022355.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_concisus_13826_uid58667/NC_009795.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_concisus_13826_uid58667/NC_009795.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_concisus_13826_uid58667/NC_009795.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_concisus_13826_uid58667/NC_009796.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_concisus_13826_uid58667/NC_009796.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_concisus_13826_uid58667/NC_009796.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_concisus_13826_uid58667/NC_009802.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_concisus_13826_uid58667/NC_009802.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_concisus_13826_uid58667/NC_009802.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_curvus_525_92_uid58669/NC_009715.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_curvus_525_92_uid58669/NC_009715.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_curvus_525_92_uid58669/NC_009715.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_fetus_82_40_uid58545/NC_008599.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_fetus_82_40_uid58545/NC_008599.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_fetus_82_40_uid58545/NC_008599.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_hominis_ATCC_BAA_381_uid58981/NC_009713.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_hominis_ATCC_BAA_381_uid58981/NC_009713.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_hominis_ATCC_BAA_381_uid58981/NC_009713.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_hominis_ATCC_BAA_381_uid58981/NC_009714.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_hominis_ATCC_BAA_381_uid58981/NC_009714.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_hominis_ATCC_BAA_381_uid58981/NC_009714.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2425_uid219359/NC_022362.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2425_uid219359/NC_022362.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2425_uid219359/NC_022362.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2426_uid219324/NC_022352.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2426_uid219324/NC_022352.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2426_uid219324/NC_022352.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2538_uid219325/NC_022351.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2538_uid219325/NC_022351.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2538_uid219325/NC_022351.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2544_uid219326/NC_022353.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2544_uid219326/NC_022353.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2544_uid219326/NC_022353.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2544_uid219326/NC_022354.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2544_uid219326/NC_022354.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_00_2544_uid219326/NC_022354.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_4031_uid222817/NC_022529.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_4031_uid222817/NC_022529.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_4031_uid222817/NC_022529.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81116_uid58771/NC_009839.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81116_uid58771/NC_009839.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81116_uid58771/NC_009839.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81_176_uid58503/NC_008770.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81_176_uid58503/NC_008770.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81_176_uid58503/NC_008770.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81_176_uid58503/NC_008787.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81_176_uid58503/NC_008787.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81_176_uid58503/NC_008787.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81_176_uid58503/NC_008790.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81_176_uid58503/NC_008790.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_81_176_uid58503/NC_008790.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_IA3902_uid159531/NC_017279.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_IA3902_uid159531/NC_017279.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_IA3902_uid159531/NC_017279.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_IA3902_uid159531/NC_017284.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_IA3902_uid159531/NC_017284.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_IA3902_uid159531/NC_017284.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_ICDCCJ07001_uid61249/NC_014801.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_ICDCCJ07001_uid61249/NC_014801.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_ICDCCJ07001_uid61249/NC_014801.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_ICDCCJ07001_uid61249/NC_014802.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_ICDCCJ07001_uid61249/NC_014802.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_ICDCCJ07001_uid61249/NC_014802.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_M1_uid159535/NC_017280.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_M1_uid159535/NC_017280.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_M1_uid159535/NC_017280.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_NCTC_11168_BN148_uid174152/NC_018521.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_NCTC_11168_BN148_uid174152/NC_018521.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_NCTC_11168_BN148_uid174152/NC_018521.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_NCTC_11168___ATCC_700819_uid57587/NC_002163.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_NCTC_11168___ATCC_700819_uid57587/NC_002163.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_NCTC_11168___ATCC_700819_uid57587/NC_002163.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_PT14_uid176499/NC_018709.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_PT14_uid176499/NC_018709.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_PT14_uid176499/NC_018709.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_RM1221_uid57899/NC_003912.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_RM1221_uid57899/NC_003912.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_RM1221_uid57899/NC_003912.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_S3_uid159533/NC_017281.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_S3_uid159533/NC_017281.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_S3_uid159533/NC_017281.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_S3_uid159533/NC_017282.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_S3_uid159533/NC_017282.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_S3_uid159533/NC_017282.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_doylei_269_97_uid58671/NC_009707.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_doylei_269_97_uid58671/NC_009707.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_jejuni_doylei_269_97_uid58671/NC_009707.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_lari_RM2100_uid58115/NC_012039.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_lari_RM2100_uid58115/NC_012039.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_lari_RM2100_uid58115/NC_012039.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_lari_RM2100_uid58115/NC_012040.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_lari_RM2100_uid58115/NC_012040.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Campylobacter_lari_RM2100_uid58115/NC_012040.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013190.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013190.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013190.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013191.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013191.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013191.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013193.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013193.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013193.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013194.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013194.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Accumulibacter_phosphatis_clade_IIA_UW_1_uid59207/NC_013194.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Amoebophilus_asiaticus_5a2_uid58963/NC_010830.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Amoebophilus_asiaticus_5a2_uid58963/NC_010830.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Amoebophilus_asiaticus_5a2_uid58963/NC_010830.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Arthromitus_SFB_mouse_Japan_uid71379/NC_015913.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Arthromitus_SFB_mouse_Japan_uid71379/NC_015913.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Arthromitus_SFB_mouse_Japan_uid71379/NC_015913.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Arthromitus_SFB_mouse_Yit_uid159517/NC_017294.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Arthromitus_SFB_mouse_Yit_uid159517/NC_017294.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Arthromitus_SFB_mouse_Yit_uid159517/NC_017294.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Arthromitus_SFB_rat_Yit_uid73425/NC_016012.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Arthromitus_SFB_rat_Yit_uid73425/NC_016012.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Arthromitus_SFB_rat_Yit_uid73425/NC_016012.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011561.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011561.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011561.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011562.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011562.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011562.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011563.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011563.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011563.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011564.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011564.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011564.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011565.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011565.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Azobacteroides_pseudotrichonymphae_genomovar__CFP2_uid59163/NC_011565.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_chromaiodes_640_uid185308/NC_020075.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_chromaiodes_640_uid185308/NC_020075.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_chromaiodes_640_uid185308/NC_020075.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_floridanus_uid57999/NC_005061.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_floridanus_uid57999/NC_005061.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_floridanus_uid57999/NC_005061.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_pennsylvanicus_BPEN_uid58329/NC_007292.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_pennsylvanicus_BPEN_uid58329/NC_007292.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_pennsylvanicus_BPEN_uid58329/NC_007292.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_vafer_BVAF_uid62083/NC_014909.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_vafer_BVAF_uid62083/NC_014909.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Blochmannia_vafer_BVAF_uid62083/NC_014909.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_CE_isolate_Thao2000_uid172732/NC_018414.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_CE_isolate_Thao2000_uid172732/NC_018414.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_CE_isolate_Thao2000_uid172732/NC_018414.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_CS_isolate_Thao2000_uid172733/NC_018415.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_CS_isolate_Thao2000_uid172733/NC_018415.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_CS_isolate_Thao2000_uid172733/NC_018415.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_DC_uid213383/NC_021894.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_DC_uid213383/NC_021894.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_DC_uid213383/NC_021894.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_HC_isolate_Thao2000_uid172734/NC_018416.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_HC_isolate_Thao2000_uid172734/NC_018416.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_HC_isolate_Thao2000_uid172734/NC_018416.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_HT_isolate_Thao2000_uid172735/NC_018417.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_HT_isolate_Thao2000_uid172735/NC_018417.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_HT_isolate_Thao2000_uid172735/NC_018417.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_PC_isolate_NHV_uid172736/NC_018418.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_PC_isolate_NHV_uid172736/NC_018418.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_PC_isolate_NHV_uid172736/NC_018418.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_uid58773/NC_008512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_uid58773/NC_008512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Carsonella_ruddii_uid58773/NC_008512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Chloracidobacterium_thermophilum_B_uid73587/NC_016024.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Chloracidobacterium_thermophilum_B_uid73587/NC_016024.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Chloracidobacterium_thermophilum_B_uid73587/NC_016024.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Chloracidobacterium_thermophilum_B_uid73587/NC_016025.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Chloracidobacterium_thermophilum_B_uid73587/NC_016025.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Chloracidobacterium_thermophilum_B_uid73587/NC_016025.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Cloacamonas_acidaminovorans_Evry_uid62959/NC_020449.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Cloacamonas_acidaminovorans_Evry_uid62959/NC_020449.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Cloacamonas_acidaminovorans_Evry_uid62959/NC_020449.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Cloacamonas_acidaminovorans_Evry_uid62959/NS_000195.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Cloacamonas_acidaminovorans_Evry_uid62959/NS_000195.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Cloacamonas_acidaminovorans_Evry_uid62959/NS_000195.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Desulforudis_audaxviator_MP104C_uid59067/NC_010424.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Desulforudis_audaxviator_MP104C_uid59067/NC_010424.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Desulforudis_audaxviator_MP104C_uid59067/NC_010424.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Hamiltonella_defensa_5AT__Acyrthosiphon_pisum__uid59289/NC_012751.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Hamiltonella_defensa_5AT__Acyrthosiphon_pisum__uid59289/NC_012751.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Hamiltonella_defensa_5AT__Acyrthosiphon_pisum__uid59289/NC_012751.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Hamiltonella_defensa_5AT__Acyrthosiphon_pisum__uid59289/NC_012752.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Hamiltonella_defensa_5AT__Acyrthosiphon_pisum__uid59289/NC_012752.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Hamiltonella_defensa_5AT__Acyrthosiphon_pisum__uid59289/NC_012752.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Hodgkinia_cicadicola_Dsem_uid59311/NC_012960.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Hodgkinia_cicadicola_Dsem_uid59311/NC_012960.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Hodgkinia_cicadicola_Dsem_uid59311/NC_012960.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_blastocrithidii_TCC012E_uid189752/NC_020285.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_blastocrithidii_TCC012E_uid189752/NC_020285.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_blastocrithidii_TCC012E_uid189752/NC_020285.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_blastocrithidii__ex_Strigomonas_culicis__uid183629/NC_019814.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_blastocrithidii__ex_Strigomonas_culicis__uid183629/NC_019814.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_blastocrithidii__ex_Strigomonas_culicis__uid183629/NC_019814.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_crithidii_TCC036E_uid189749/NC_020283.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_crithidii_TCC036E_uid189749/NC_020283.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_crithidii_TCC036E_uid189749/NC_020283.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_crithidii__ex_Angomonas_deanei_ATCC_30255__uid183630/NC_019815.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_crithidii__ex_Angomonas_deanei_ATCC_30255__uid183630/NC_019815.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_crithidii__ex_Angomonas_deanei_ATCC_30255__uid183630/NC_019815.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_desouzaii_TCC079E_uid189750/NC_020294.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_desouzaii_TCC079E_uid189750/NC_020294.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_desouzaii_TCC079E_uid189750/NC_020294.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_galatii_TCC219_uid189751/NC_020284.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_galatii_TCC219_uid189751/NC_020284.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_galatii_TCC219_uid189751/NC_020284.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_oncopeltii_TCC290E_uid189840/NC_020299.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_oncopeltii_TCC290E_uid189840/NC_020299.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Kinetoplastibacterium_oncopeltii_TCC290E_uid189840/NC_020299.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Koribacter_versatilis_Ellin345_uid58479/NC_008009.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Koribacter_versatilis_Ellin345_uid58479/NC_008009.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Koribacter_versatilis_Ellin345_uid58479/NC_008009.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_americanus_Sao_Paulo_uid227424/NC_022793.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_americanus_Sao_Paulo_uid227424/NC_022793.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_americanus_Sao_Paulo_uid227424/NC_022793.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_asiaticus_gxpsy_uid193764/NC_020549.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_asiaticus_gxpsy_uid193764/NC_020549.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_asiaticus_gxpsy_uid193764/NC_020549.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_asiaticus_psy62_uid59227/NC_012985.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_asiaticus_psy62_uid59227/NC_012985.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_asiaticus_psy62_uid59227/NC_012985.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_solanacearum_CLso_ZC1_uid61245/NC_014774.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_solanacearum_CLso_ZC1_uid61245/NC_014774.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Liberibacter_solanacearum_CLso_ZC1_uid61245/NC_014774.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Methylomirabilis_oxyfera_uid161981/NC_013260.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Methylomirabilis_oxyfera_uid161981/NC_013260.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Methylomirabilis_oxyfera_uid161981/NC_013260.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Midichloria_mitochondrii_IricVA_uid68687/NC_015722.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Midichloria_mitochondrii_IricVA_uid68687/NC_015722.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Midichloria_mitochondrii_IricVA_uid68687/NC_015722.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Moranella_endobia_PCIT_uid68739/NC_015735.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Moranella_endobia_PCIT_uid68739/NC_015735.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Moranella_endobia_PCIT_uid68739/NC_015735.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Moranella_endobia_PCVAL_uid197215/NC_021057.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Moranella_endobia_PCVAL_uid197215/NC_021057.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Moranella_endobia_PCVAL_uid197215/NC_021057.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Mycoplasma_haemolamae_Purdue_uid171259/NC_018219.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Mycoplasma_haemolamae_Purdue_uid171259/NC_018219.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Mycoplasma_haemolamae_Purdue_uid171259/NC_018219.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Mycoplasma_haemominutum__Birmingham_1__uid197195/NC_021007.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Mycoplasma_haemominutum__Birmingham_1__uid197195/NC_021007.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Mycoplasma_haemominutum__Birmingham_1__uid197195/NC_021007.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Nasuia_deltocephalinicola_NAS_ALF_uid214084/NC_021919.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Nasuia_deltocephalinicola_NAS_ALF_uid214084/NC_021919.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Nasuia_deltocephalinicola_NAS_ALF_uid214084/NC_021919.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Nitrospira_defluvii_uid51175/NC_014355.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Nitrospira_defluvii_uid51175/NC_014355.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Nitrospira_defluvii_uid51175/NC_014355.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Pelagibacter_IMCC9063_uid66305/NC_015380.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Pelagibacter_IMCC9063_uid66305/NC_015380.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Pelagibacter_IMCC9063_uid66305/NC_015380.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Pelagibacter_ubique_HTCC1062_uid58401/NC_007205.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Pelagibacter_ubique_HTCC1062_uid58401/NC_007205.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Pelagibacter_ubique_HTCC1062_uid58401/NC_007205.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Phytoplasma_australiense_uid61641/NC_010544.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Phytoplasma_australiense_uid61641/NC_010544.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Phytoplasma_australiense_uid61641/NC_010544.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Phytoplasma_mali_uid59087/NC_011047.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Phytoplasma_mali_uid59087/NC_011047.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Phytoplasma_mali_uid59087/NC_011047.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Phytoplasma_solani_284_09_uid225030/NC_022588.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Phytoplasma_solani_284_09_uid225030/NC_022588.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Phytoplasma_solani_284_09_uid225030/NC_022588.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_B_uid173859/NC_018507.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_B_uid173859/NC_018507.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_B_uid173859/NC_018507.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_B_uid176373/NC_018677.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_B_uid176373/NC_018677.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_B_uid176373/NC_018677.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_QVLC_uid175570/NC_018618.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_QVLC_uid175570/NC_018618.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_QVLC_uid175570/NC_018618.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_QVLC_uid176374/NC_018676.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_QVLC_uid176374/NC_018676.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_BT_QVLC_uid176374/NC_018676.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_TV_uid195460/NC_020831.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_TV_uid195460/NC_020831.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Portiera_aleyrodidarum_TV_uid195460/NC_020831.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Protochlamydia_amoebophila_UWE25_uid58079/NC_005861.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Protochlamydia_amoebophila_UWE25_uid58079/NC_005861.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Protochlamydia_amoebophila_UWE25_uid58079/NC_005861.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Puniceispirillum_marinum_IMCC1322_uid47081/NC_014010.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Puniceispirillum_marinum_IMCC1322_uid47081/NC_014010.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Puniceispirillum_marinum_IMCC1322_uid47081/NC_014010.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017020.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017020.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017020.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017021.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017021.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017021.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017028.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017028.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017028.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017029.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017029.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Rickettsia_amblyommii_GAT_30V_uid156845/NC_017029.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Riesia_pediculicola_USDA_uid46841/NC_013962.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Riesia_pediculicola_USDA_uid46841/NC_013962.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Riesia_pediculicola_USDA_uid46841/NC_013962.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Riesia_pediculicola_USDA_uid46841/NC_014109.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Riesia_pediculicola_USDA_uid46841/NC_014109.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Riesia_pediculicola_USDA_uid46841/NC_014109.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Ruthia_magnifica_Cm__Calyptogena_magnifica__uid58645/NC_008610.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Ruthia_magnifica_Cm__Calyptogena_magnifica__uid58645/NC_008610.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Ruthia_magnifica_Cm__Calyptogena_magnifica__uid58645/NC_008610.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Saccharibacteria_bacterium_RAAC3_TM7_1_uid230715/NC_023004.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Saccharibacteria_bacterium_RAAC3_TM7_1_uid230715/NC_023004.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Saccharibacteria_bacterium_RAAC3_TM7_1_uid230715/NC_023004.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Saccharobacterium_alaburgensis_uid203361/NC_021219.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Saccharobacterium_alaburgensis_uid203361/NC_021219.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Saccharobacterium_alaburgensis_uid203361/NC_021219.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Solibacter_usitatus_Ellin6076_uid58139/NC_008536.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Solibacter_usitatus_Ellin6076_uid58139/NC_008536.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Solibacter_usitatus_Ellin6076_uid58139/NC_008536.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_CARI_uid52535/NC_014499.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_CARI_uid52535/NC_014499.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_CARI_uid52535/NC_014499.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_DMIN_uid47075/NC_014004.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_DMIN_uid47075/NC_014004.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_DMIN_uid47075/NC_014004.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_GWSS_uid58943/NC_010118.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_GWSS_uid58943/NC_010118.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_GWSS_uid58943/NC_010118.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_SMDSEM_uid59393/NC_013123.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_SMDSEM_uid59393/NC_013123.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_SMDSEM_uid59393/NC_013123.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_Sulcia_ALF_uid214083/NC_021916.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_Sulcia_ALF_uid214083/NC_021916.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Sulcia_muelleri_Sulcia_ALF_uid214083/NC_021916.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_phenacola_PAVE_uid209173/NC_021553.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_phenacola_PAVE_uid209173/NC_021553.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_phenacola_PAVE_uid209173/NC_021553.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_phenacola_PAVE_uid209173/NC_021555.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_phenacola_PAVE_uid209173/NC_021555.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_phenacola_PAVE_uid209173/NC_021555.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_princeps_PCIT_uid68741/NC_015736.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_princeps_PCIT_uid68741/NC_015736.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_princeps_PCIT_uid68741/NC_015736.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_princeps_PCVAL_uid159519/NC_017293.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_princeps_PCVAL_uid159519/NC_017293.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Tremblaya_princeps_PCVAL_uid159519/NC_017293.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Uzinura_diaspidicola_ASNER_uid186740/NC_020135.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Uzinura_diaspidicola_ASNER_uid186740/NC_020135.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Uzinura_diaspidicola_ASNER_uid186740/NC_020135.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Vesicomyosocius_okutanii_HA_uid59427/NC_009465.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Vesicomyosocius_okutanii_HA_uid59427/NC_009465.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Vesicomyosocius_okutanii_HA_uid59427/NC_009465.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Zinderia_insecticola_CARI_uid52459/NC_014497.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Zinderia_insecticola_CARI_uid52459/NC_014497.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Candidatus_Zinderia_insecticola_CARI_uid52459/NC_014497.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Capnocytophaga_canimorsus_Cc5_uid70727/NC_015846.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Capnocytophaga_canimorsus_Cc5_uid70727/NC_015846.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Capnocytophaga_canimorsus_Cc5_uid70727/NC_015846.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Capnocytophaga_ochracea_DSM_7271_uid59197/NC_013162.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Capnocytophaga_ochracea_DSM_7271_uid59197/NC_013162.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Capnocytophaga_ochracea_DSM_7271_uid59197/NC_013162.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carboxydothermus_hydrogenoformans_Z_2901_uid57821/NC_007503.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carboxydothermus_hydrogenoformans_Z_2901_uid57821/NC_007503.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carboxydothermus_hydrogenoformans_Z_2901_uid57821/NC_007503.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cardinium_endosymbiont_cEper1_of_Encarsia_pergandiella_uid175524/NC_018605.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cardinium_endosymbiont_cEper1_of_Encarsia_pergandiella_uid175524/NC_018605.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cardinium_endosymbiont_cEper1_of_Encarsia_pergandiella_uid175524/NC_018605.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cardinium_endosymbiont_cEper1_of_Encarsia_pergandiella_uid175524/NC_018606.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cardinium_endosymbiont_cEper1_of_Encarsia_pergandiella_uid175524/NC_018606.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cardinium_endosymbiont_cEper1_of_Encarsia_pergandiella_uid175524/NC_018606.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_17_4_uid65789/NC_015390.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_17_4_uid65789/NC_015390.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_17_4_uid65789/NC_015390.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_17_4_uid65789/NC_015391.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_17_4_uid65789/NC_015391.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_17_4_uid65789/NC_015391.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022601.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022601.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022601.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022602.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022602.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022602.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022603.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022603.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022603.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022606.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022606.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022606.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022607.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022607.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022607.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022608.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022608.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_WN1359_uid225603/NC_022608.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_maltaromaticum_LMA28_uid179370/NC_019425.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_maltaromaticum_LMA28_uid179370/NC_019425.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Carnobacterium_maltaromaticum_LMA28_uid179370/NC_019425.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Catenulispora_acidiphila_DSM_44928_uid59077/NC_013131.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Catenulispora_acidiphila_DSM_44928_uid59077/NC_013131.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Catenulispora_acidiphila_DSM_44928_uid59077/NC_013131.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_K31_uid58551/NC_010333.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_K31_uid58551/NC_010333.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_K31_uid58551/NC_010333.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_K31_uid58551/NC_010335.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_K31_uid58551/NC_010335.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_K31_uid58551/NC_010335.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_K31_uid58551/NC_010338.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_K31_uid58551/NC_010338.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_K31_uid58551/NC_010338.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_crescentus_CB15_uid57891/NC_002696.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_crescentus_CB15_uid57891/NC_002696.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_crescentus_CB15_uid57891/NC_002696.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_crescentus_NA1000_uid59307/NC_011916.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_crescentus_NA1000_uid59307/NC_011916.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_crescentus_NA1000_uid59307/NC_011916.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_segnis_ATCC_21756_uid41709/NC_014100.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_segnis_ATCC_21756_uid41709/NC_014100.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Caulobacter_segnis_ATCC_21756_uid41709/NC_014100.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulomonas_fimi_ATCC_484_uid66779/NC_015514.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulomonas_fimi_ATCC_484_uid66779/NC_015514.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulomonas_fimi_ATCC_484_uid66779/NC_015514.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulomonas_flavigena_DSM_20109_uid48821/NC_014151.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulomonas_flavigena_DSM_20109_uid48821/NC_014151.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulomonas_flavigena_DSM_20109_uid48821/NC_014151.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulophaga_algicola_DSM_14237_uid62159/NC_014934.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulophaga_algicola_DSM_14237_uid62159/NC_014934.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulophaga_algicola_DSM_14237_uid62159/NC_014934.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulophaga_lytica_DSM_7489_uid63401/NC_015167.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulophaga_lytica_DSM_7489_uid63401/NC_015167.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellulophaga_lytica_DSM_7489_uid63401/NC_015167.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellvibrio_japonicus_Ueda107_uid59139/NC_010995.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellvibrio_japonicus_Ueda107_uid59139/NC_010995.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cellvibrio_japonicus_Ueda107_uid59139/NC_010995.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chamaesiphon_minutus_PCC_6605_uid183005/NC_019697.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chamaesiphon_minutus_PCC_6605_uid183005/NC_019697.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chamaesiphon_minutus_PCC_6605_uid183005/NC_019697.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chamaesiphon_minutus_PCC_6605_uid183005/NC_019698.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chamaesiphon_minutus_PCC_6605_uid183005/NC_019698.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chamaesiphon_minutus_PCC_6605_uid183005/NC_019698.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chamaesiphon_minutus_PCC_6605_uid183005/NC_020053.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chamaesiphon_minutus_PCC_6605_uid183005/NC_020053.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chamaesiphon_minutus_PCC_6605_uid183005/NC_020053.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008242.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008242.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008242.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008243.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008243.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008243.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008244.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008244.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008244.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008254.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008254.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chelativorans_BNC1_uid58069/NC_008254.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chitinophaga_pinensis_DSM_2588_uid59113/NC_013132.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chitinophaga_pinensis_DSM_2588_uid59113/NC_013132.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chitinophaga_pinensis_DSM_2588_uid59113/NC_013132.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_muridarum_Nigg_uid57785/NC_002182.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_muridarum_Nigg_uid57785/NC_002182.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_muridarum_Nigg_uid57785/NC_002182.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_muridarum_Nigg_uid57785/NC_002620.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_muridarum_Nigg_uid57785/NC_002620.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_muridarum_Nigg_uid57785/NC_002620.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_pecorum_P787_uid221292/NC_022441.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_pecorum_P787_uid221292/NC_022441.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_pecorum_P787_uid221292/NC_022441.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_pecorum_PV3056_3_uid221290/NC_022439.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_pecorum_PV3056_3_uid221290/NC_022439.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_pecorum_PV3056_3_uid221290/NC_022439.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_pecorum_W73_uid221291/NC_022440.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_pecorum_W73_uid221291/NC_022440.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_pecorum_W73_uid221291/NC_022440.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_01DC12_uid179070/NC_019391.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_01DC12_uid179070/NC_019391.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_01DC12_uid179070/NC_019391.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_01DC12_uid179070/NC_019392.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_01DC12_uid179070/NC_019392.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_01DC12_uid179070/NC_019392.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_84_55_uid175571/NC_018619.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_84_55_uid175571/NC_018619.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_84_55_uid175571/NC_018619.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_84_55_uid175571/NC_018633.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_84_55_uid175571/NC_018633.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_84_55_uid175571/NC_018633.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_CP3_uid175578/NC_018625.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_CP3_uid175578/NC_018625.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_CP3_uid175578/NC_018625.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_CP3_uid175578/NC_018634.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_CP3_uid175578/NC_018634.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_CP3_uid175578/NC_018634.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_GR9_uid175572/NC_018620.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_GR9_uid175572/NC_018620.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_GR9_uid175572/NC_018620.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_M56_uid175576/NC_018623.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_M56_uid175576/NC_018623.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_M56_uid175576/NC_018623.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_M56_uid175576/NC_018635.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_M56_uid175576/NC_018635.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_M56_uid175576/NC_018635.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_MN_uid175573/NC_018627.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_MN_uid175573/NC_018627.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_MN_uid175573/NC_018627.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_MN_uid175573/NC_018636.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_MN_uid175573/NC_018636.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_MN_uid175573/NC_018636.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_NJ1_uid175579/NC_018626.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_NJ1_uid175579/NC_018626.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_NJ1_uid175579/NC_018626.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_NJ1_uid175579/NC_018637.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_NJ1_uid175579/NC_018637.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_NJ1_uid175579/NC_018637.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_VS225_uid175574/NC_018621.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_VS225_uid175574/NC_018621.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_VS225_uid175574/NC_018621.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_VS225_uid175574/NC_018638.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_VS225_uid175574/NC_018638.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_VS225_uid175574/NC_018638.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WC_uid175577/NC_018624.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WC_uid175577/NC_018624.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WC_uid175577/NC_018624.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WC_uid175577/NC_018639.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WC_uid175577/NC_018639.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WC_uid175577/NC_018639.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WS_RT_E30_uid175575/NC_018622.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WS_RT_E30_uid175575/NC_018622.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WS_RT_E30_uid175575/NC_018622.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WS_RT_E30_uid175575/NC_018640.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WS_RT_E30_uid175575/NC_018640.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_psittaci_WS_RT_E30_uid175575/NC_018640.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_434_Bu_uid61633/NC_010287.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_434_Bu_uid61633/NC_010287.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_434_Bu_uid61633/NC_010287.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A2497_uid159863/NC_016798.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A2497_uid159863/NC_016798.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A2497_uid159863/NC_016798.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A2497_uid159993/NC_017437.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A2497_uid159993/NC_017437.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A2497_uid159993/NC_017437.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A2497_uid159993/NC_017438.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A2497_uid159993/NC_017438.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A2497_uid159993/NC_017438.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_363_uid196769/NC_019272.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_363_uid196769/NC_019272.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_363_uid196769/NC_019272.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_363_uid196769/NC_020966.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_363_uid196769/NC_020966.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_363_uid196769/NC_020966.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_5291_uid196770/NC_020939.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_5291_uid196770/NC_020939.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_5291_uid196770/NC_020939.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_5291_uid196770/NC_020946.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_5291_uid196770/NC_020946.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_5291_uid196770/NC_020946.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_7249_uid196771/NC_020944.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_7249_uid196771/NC_020944.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_7249_uid196771/NC_020944.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_7249_uid196771/NC_020979.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_7249_uid196771/NC_020979.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_7249_uid196771/NC_020979.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_HAR_13_uid58333/NC_007429.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_HAR_13_uid58333/NC_007429.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_HAR_13_uid58333/NC_007429.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_HAR_13_uid58333/NC_007430.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_HAR_13_uid58333/NC_007430.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_A_HAR_13_uid58333/NC_007430.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_B_Jali20_OT_uid59351/NC_012686.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_B_Jali20_OT_uid59351/NC_012686.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_B_Jali20_OT_uid59351/NC_012686.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_B_TZ1A828_OT_uid59349/NC_012687.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_B_TZ1A828_OT_uid59349/NC_012687.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_B_TZ1A828_OT_uid59349/NC_012687.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_C_TW_3_uid232251/NC_023057.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_C_TW_3_uid232251/NC_023057.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_C_TW_3_uid232251/NC_023057.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_C_TW_3_uid232251/NC_023060.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_C_TW_3_uid232251/NC_023060.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_C_TW_3_uid232251/NC_023060.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_EC_uid159881/NC_017434.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_EC_uid159881/NC_017434.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_EC_uid159881/NC_017434.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_EC_uid159881/NC_017435.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_EC_uid159881/NC_017435.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_EC_uid159881/NC_017435.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_LC_uid159879/NC_017433.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_LC_uid159879/NC_017433.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_LC_uid159879/NC_017433.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_LC_uid159879/NC_017436.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_LC_uid159879/NC_017436.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_LC_uid159879/NC_017436.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD1_uid196772/NC_020967.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD1_uid196772/NC_020967.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD1_uid196772/NC_020967.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD1_uid196772/NC_020986.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD1_uid196772/NC_020986.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD1_uid196772/NC_020986.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD5_uid196773/NC_020943.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD5_uid196773/NC_020943.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD5_uid196773/NC_020943.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD5_uid196773/NC_020958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD5_uid196773/NC_020958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD5_uid196773/NC_020958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD6_uid196774/NC_020959.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD6_uid196774/NC_020959.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD6_uid196774/NC_020959.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD6_uid196774/NC_020968.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD6_uid196774/NC_020968.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_SotonD6_uid196774/NC_020968.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_UW_3_CX_uid57637/NC_000117.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_UW_3_CX_uid57637/NC_000117.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_D_UW_3_CX_uid57637/NC_000117.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_11023_uid161369/NC_017431.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_11023_uid161369/NC_017431.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_11023_uid161369/NC_017431.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_150_uid161403/NC_017439.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_150_uid161403/NC_017439.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_150_uid161403/NC_017439.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_Bour_uid196775/NC_020947.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_Bour_uid196775/NC_020947.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_Bour_uid196775/NC_020947.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_Bour_uid196775/NC_020971.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_Bour_uid196775/NC_020971.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_Bour_uid196775/NC_020971.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_C599_uid222812/NC_022537.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_C599_uid222812/NC_022537.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_C599_uid222812/NC_022537.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SW3_uid167483/NC_012631.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SW3_uid167483/NC_012631.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SW3_uid167483/NC_012631.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SW3_uid167483/NC_017952.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SW3_uid167483/NC_017952.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SW3_uid167483/NC_017952.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE4_uid196776/NC_020969.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE4_uid196776/NC_020969.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE4_uid196776/NC_020969.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE4_uid196776/NC_020987.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE4_uid196776/NC_020987.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE4_uid196776/NC_020987.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE8_uid196777/NC_020942.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE8_uid196777/NC_020942.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE8_uid196777/NC_020942.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE8_uid196777/NC_020960.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE8_uid196777/NC_020960.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_E_SotonE8_uid196777/NC_020960.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW4_uid167484/NC_012625.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW4_uid167484/NC_012625.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW4_uid167484/NC_012625.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW4_uid167484/NC_017951.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW4_uid167484/NC_017951.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW4_uid167484/NC_017951.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW5_uid167485/NC_012626.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW5_uid167485/NC_012626.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW5_uid167485/NC_012626.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW5_uid167485/NC_017953.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW5_uid167485/NC_017953.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SW5_uid167485/NC_017953.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SWFPminus_uid222813/NC_022548.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SWFPminus_uid222813/NC_022548.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_F_SWFPminus_uid222813/NC_022548.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_11074_uid161409/NC_017440.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_11074_uid161409/NC_017440.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_11074_uid161409/NC_017440.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_11222_uid161361/NC_017430.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_11222_uid161361/NC_017430.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_11222_uid161361/NC_017430.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_9301_uid161377/NC_017432.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_9301_uid161377/NC_017432.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_9301_uid161377/NC_017432.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_9768_uid161353/NC_017429.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_9768_uid161353/NC_017429.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_9768_uid161353/NC_017429.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_SotonG1_uid196779/NC_020941.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_SotonG1_uid196779/NC_020941.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_SotonG1_uid196779/NC_020941.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_SotonG1_uid196779/NC_020961.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_SotonG1_uid196779/NC_020961.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_G_SotonG1_uid196779/NC_020961.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU824_uid193712/NC_020511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU824_uid193712/NC_020511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU824_uid193712/NC_020511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU824_uid193712/NC_020551.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU824_uid193712/NC_020551.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU824_uid193712/NC_020551.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU888_uid193713/NC_020512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU888_uid193713/NC_020512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU888_uid193713/NC_020512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU888_uid193713/NC_020513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU888_uid193713/NC_020513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_IU888_uid193713/NC_020513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_Ia_SotonIa1_uid196780/NC_020962.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_Ia_SotonIa1_uid196780/NC_020962.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_Ia_SotonIa1_uid196780/NC_020962.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_Ia_SotonIa1_uid196780/NC_020970.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_Ia_SotonIa1_uid196780/NC_020970.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_Ia_SotonIa1_uid196780/NC_020970.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_J_6276tet1_uid213394/NC_021892.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_J_6276tet1_uid213394/NC_021892.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_J_6276tet1_uid213394/NC_021892.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_K_SotonK1_uid196782/NC_020963.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_K_SotonK1_uid196782/NC_020963.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_K_SotonK1_uid196782/NC_020963.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_K_SotonK1_uid196782/NC_020965.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_K_SotonK1_uid196782/NC_020965.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_K_SotonK1_uid196782/NC_020965.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_115_uid196784/NC_020929.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_115_uid196784/NC_020929.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_115_uid196784/NC_020929.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_115_uid196784/NC_020951.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_115_uid196784/NC_020951.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_115_uid196784/NC_020951.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_224_uid196785/NC_020952.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_224_uid196785/NC_020952.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_224_uid196785/NC_020952.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_224_uid196785/NC_020973.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_224_uid196785/NC_020973.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_224_uid196785/NC_020973.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_440_LN_uid196783/NC_020937.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_440_LN_uid196783/NC_020937.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L1_440_LN_uid196783/NC_020937.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_25667R_uid196786/NC_020930.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_25667R_uid196786/NC_020930.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_25667R_uid196786/NC_020930.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_f__uid198644/NC_021049.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_f__uid198644/NC_021049.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_f__uid198644/NC_021049.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_f__uid198644/NC_021052.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_f__uid198644/NC_021052.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_f__uid198644/NC_021052.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_i__uid198643/NC_021050.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_i__uid198643/NC_021050.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_i__uid198643/NC_021050.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_i__uid198643/NC_021051.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_i__uid198643/NC_021051.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2_434_Bu_i__uid198643/NC_021051.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_795_uid196791/NC_020938.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_795_uid196791/NC_020938.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_795_uid196791/NC_020938.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_795_uid196791/NC_020983.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_795_uid196791/NC_020983.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_795_uid196791/NC_020983.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_8200_07_uid196787/NC_020945.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_8200_07_uid196787/NC_020945.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_8200_07_uid196787/NC_020945.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_8200_07_uid196787/NC_020984.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_8200_07_uid196787/NC_020984.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_8200_07_uid196787/NC_020984.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams1_uid196792/NC_020933.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams1_uid196792/NC_020933.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams1_uid196792/NC_020933.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams1_uid196792/NC_020980.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams1_uid196792/NC_020980.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams1_uid196792/NC_020980.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams2_uid196793/NC_020934.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams2_uid196793/NC_020934.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams2_uid196793/NC_020934.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams2_uid196793/NC_020948.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams2_uid196793/NC_020948.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams2_uid196793/NC_020948.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams3_uid196794/NC_020949.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams3_uid196794/NC_020949.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams3_uid196794/NC_020949.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams3_uid196794/NC_020977.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams3_uid196794/NC_020977.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams3_uid196794/NC_020977.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams4_uid196795/NC_020978.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams4_uid196795/NC_020978.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams4_uid196795/NC_020978.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams4_uid196795/NC_020981.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams4_uid196795/NC_020981.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams4_uid196795/NC_020981.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams5_uid196796/NC_020936.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams5_uid196796/NC_020936.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams5_uid196796/NC_020936.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams5_uid196796/NC_020950.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams5_uid196796/NC_020950.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Ams5_uid196796/NC_020950.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_CV204_uid196790/NC_020955.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_CV204_uid196790/NC_020955.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_CV204_uid196790/NC_020955.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_CV204_uid196790/NC_020976.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_CV204_uid196790/NC_020976.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_CV204_uid196790/NC_020976.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada1_uid196798/NC_020935.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada1_uid196798/NC_020935.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada1_uid196798/NC_020935.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada1_uid196798/NC_020953.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada1_uid196798/NC_020953.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada1_uid196798/NC_020953.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada2_uid196799/NC_020932.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada2_uid196799/NC_020932.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada2_uid196799/NC_020932.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada2_uid196799/NC_020954.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada2_uid196799/NC_020954.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_Canada2_uid196799/NC_020954.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_LST_uid196789/NC_020975.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_LST_uid196789/NC_020975.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_LST_uid196789/NC_020975.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_LST_uid196789/NC_020985.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_LST_uid196789/NC_020985.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_LST_uid196789/NC_020985.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_UCH_1_proctitis_uid61635/NC_010280.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_UCH_1_proctitis_uid61635/NC_010280.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_UCH_1_proctitis_uid61635/NC_010280.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_UCH_2_uid196788/NC_020931.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_UCH_2_uid196788/NC_020931.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_UCH_2_uid196788/NC_020931.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_UCH_2_uid196788/NC_020956.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_UCH_2_uid196788/NC_020956.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2b_UCH_2_uid196788/NC_020956.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2c_uid68843/NC_015744.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2c_uid68843/NC_015744.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L2c_uid68843/NC_015744.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L3_404_LN_uid196797/NC_020957.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L3_404_LN_uid196797/NC_020957.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L3_404_LN_uid196797/NC_020957.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L3_404_LN_uid196797/NC_020974.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L3_404_LN_uid196797/NC_020974.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_L3_404_LN_uid196797/NC_020974.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_F_69_uid213385/NC_021895.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_F_69_uid213385/NC_021895.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_F_69_uid213385/NC_021895.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_F_s_342_uid213391/NC_021890.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_F_s_342_uid213391/NC_021890.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_F_s_342_uid213391/NC_021890.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_F_s_852_uid213387/NC_021888.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_F_s_852_uid213387/NC_021888.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_F_s_852_uid213387/NC_021888.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_943_uid213388/NC_021896.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_943_uid213388/NC_021896.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_943_uid213388/NC_021896.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_953_uid213389/NC_021889.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_953_uid213389/NC_021889.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_953_uid213389/NC_021889.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_966_uid213393/NC_021898.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_966_uid213393/NC_021898.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_966_uid213393/NC_021898.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_971_uid213395/NC_021899.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_971_uid213395/NC_021899.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_971_uid213395/NC_021899.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_s_122_uid213392/NC_021891.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_s_122_uid213392/NC_021891.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_J_s_122_uid213392/NC_021891.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_L2_55_uid213396/NC_021893.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_L2_55_uid213396/NC_021893.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_L2_55_uid213396/NC_021893.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_L2_s_3_uid213390/NC_021897.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_L2_s_3_uid213390/NC_021897.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_L2_s_3_uid213390/NC_021897.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_L2_s_46_uid213386/NC_021887.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_L2_s_46_uid213386/NC_021887.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_RC_L2_s_46_uid213386/NC_021887.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_Sweden2_uid161995/NC_017441.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_Sweden2_uid161995/NC_017441.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_Sweden2_uid161995/NC_017441.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196778/NC_020964.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196778/NC_020964.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196778/NC_020964.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196778/NC_020988.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196778/NC_020988.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196778/NC_020988.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196781/NC_020940.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196781/NC_020940.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196781/NC_020940.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196781/NC_020989.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196781/NC_020989.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196781/NC_020989.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196800/NC_020972.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196800/NC_020972.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196800/NC_020972.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196800/NC_020982.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196800/NC_020982.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydia_trachomatis_uid196800/NC_020982.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_abortus_S26_3_uid57963/NC_004552.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_abortus_S26_3_uid57963/NC_004552.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_abortus_S26_3_uid57963/NC_004552.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_caviae_GPIC_uid57783/NC_003361.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_caviae_GPIC_uid57783/NC_003361.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_caviae_GPIC_uid57783/NC_003361.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_caviae_GPIC_uid57783/NC_004720.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_caviae_GPIC_uid57783/NC_004720.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_caviae_GPIC_uid57783/NC_004720.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_felis_Fe_C_56_uid57971/NC_007899.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_felis_Fe_C_56_uid57971/NC_007899.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_felis_Fe_C_56_uid57971/NC_007899.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_felis_Fe_C_56_uid57971/NC_007900.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_felis_Fe_C_56_uid57971/NC_007900.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_felis_Fe_C_56_uid57971/NC_007900.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pecorum_E58_uid66295/NC_015408.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pecorum_E58_uid66295/NC_015408.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pecorum_E58_uid66295/NC_015408.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_AR39_uid57809/NC_002179.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_AR39_uid57809/NC_002179.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_AR39_uid57809/NC_002179.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_AR39_uid57809/NC_002180.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_AR39_uid57809/NC_002180.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_AR39_uid57809/NC_002180.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_CWL029_uid57811/NC_000922.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_CWL029_uid57811/NC_000922.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_CWL029_uid57811/NC_000922.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_J138_uid57829/NC_002491.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_J138_uid57829/NC_002491.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_J138_uid57829/NC_002491.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_LPCoLN_uid159529/NC_017285.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_LPCoLN_uid159529/NC_017285.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_LPCoLN_uid159529/NC_017285.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_LPCoLN_uid159529/NC_017286.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_LPCoLN_uid159529/NC_017286.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_LPCoLN_uid159529/NC_017286.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_TW_183_uid57997/NC_005043.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_TW_183_uid57997/NC_005043.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_pneumoniae_TW_183_uid57997/NC_005043.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_01DC11_uid159527/NC_017289.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_01DC11_uid159527/NC_017289.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_01DC11_uid159527/NC_017289.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_02DC15_uid159521/NC_017292.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_02DC15_uid159521/NC_017292.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_02DC15_uid159521/NC_017292.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_08DC60_uid159525/NC_017290.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_08DC60_uid159525/NC_017290.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_08DC60_uid159525/NC_017290.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid159845/NC_017287.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid159845/NC_017287.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid159845/NC_017287.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid159845/NC_017288.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid159845/NC_017288.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid159845/NC_017288.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid63621/NC_015217.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid63621/NC_015217.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid63621/NC_015217.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid63621/NC_015470.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid63621/NC_015470.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_6BC_uid63621/NC_015470.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_C19_98_uid159523/NC_017291.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_C19_98_uid159523/NC_017291.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_C19_98_uid159523/NC_017291.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_Mat116_uid189026/NC_020248.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_Mat116_uid189026/NC_020248.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_Mat116_uid189026/NC_020248.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_RD1_uid162063/NC_014796.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_RD1_uid162063/NC_014796.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_RD1_uid162063/NC_014796.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_RD1_uid162063/NC_014797.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_RD1_uid162063/NC_014797.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlamydophila_psittaci_RD1_uid162063/NC_014797.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobaculum_parvum_NCIB_8327_uid59185/NC_011027.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobaculum_parvum_NCIB_8327_uid59185/NC_011027.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobaculum_parvum_NCIB_8327_uid59185/NC_011027.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_chlorochromatii_CaD3_uid58375/NC_007514.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_chlorochromatii_CaD3_uid58375/NC_007514.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_chlorochromatii_CaD3_uid58375/NC_007514.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_limicola_DSM_245_uid58127/NC_010803.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_limicola_DSM_245_uid58127/NC_010803.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_limicola_DSM_245_uid58127/NC_010803.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_luteolum_DSM_273_uid58175/NC_007512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_luteolum_DSM_273_uid58175/NC_007512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_luteolum_DSM_273_uid58175/NC_007512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_phaeobacteroides_BS1_uid58131/NC_010831.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_phaeobacteroides_BS1_uid58131/NC_010831.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_phaeobacteroides_BS1_uid58131/NC_010831.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_phaeobacteroides_DSM_266_uid58133/NC_008639.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_phaeobacteroides_DSM_266_uid58133/NC_008639.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_phaeobacteroides_DSM_266_uid58133/NC_008639.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_phaeovibrioides_DSM_265_uid58129/NC_009337.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_phaeovibrioides_DSM_265_uid58129/NC_009337.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_phaeovibrioides_DSM_265_uid58129/NC_009337.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_tepidum_TLS_uid57897/NC_002932.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_tepidum_TLS_uid57897/NC_002932.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chlorobium_tepidum_TLS_uid57897/NC_002932.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroflexus_Y_400_fl_uid59085/NC_012032.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroflexus_Y_400_fl_uid59085/NC_012032.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroflexus_Y_400_fl_uid59085/NC_012032.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroflexus_aggregans_DSM_9485_uid58621/NC_011831.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroflexus_aggregans_DSM_9485_uid58621/NC_011831.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroflexus_aggregans_DSM_9485_uid58621/NC_011831.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroflexus_aurantiacus_J_10_fl_uid57657/NC_010175.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroflexus_aurantiacus_J_10_fl_uid57657/NC_010175.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroflexus_aurantiacus_J_10_fl_uid57657/NC_010175.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroherpeton_thalassium_ATCC_35110_uid59187/NC_011026.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroherpeton_thalassium_ATCC_35110_uid59187/NC_011026.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chloroherpeton_thalassium_ATCC_35110_uid59187/NC_011026.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chromobacterium_violaceum_ATCC_12472_uid58001/NC_005085.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chromobacterium_violaceum_ATCC_12472_uid58001/NC_005085.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chromobacterium_violaceum_ATCC_12472_uid58001/NC_005085.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chromohalobacter_salexigens_DSM_3043_uid62921/NC_007963.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chromohalobacter_salexigens_DSM_3043_uid62921/NC_007963.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chromohalobacter_salexigens_DSM_3043_uid62921/NC_007963.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chroococcidiopsis_thermalis_PCC_7203_uid183002/NC_019695.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chroococcidiopsis_thermalis_PCC_7203_uid183002/NC_019695.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chroococcidiopsis_thermalis_PCC_7203_uid183002/NC_019695.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chroococcidiopsis_thermalis_PCC_7203_uid183002/NC_019696.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chroococcidiopsis_thermalis_PCC_7203_uid183002/NC_019696.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chroococcidiopsis_thermalis_PCC_7203_uid183002/NC_019696.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chroococcidiopsis_thermalis_PCC_7203_uid183002/NC_019699.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chroococcidiopsis_thermalis_PCC_7203_uid183002/NC_019699.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chroococcidiopsis_thermalis_PCC_7203_uid183002/NC_019699.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chthonomonas_calidirosea_T49_uid208678/NC_021487.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chthonomonas_calidirosea_T49_uid208678/NC_021487.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Chthonomonas_calidirosea_T49_uid208678/NC_021487.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_koseri_ATCC_BAA_895_uid58143/NC_009792.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_koseri_ATCC_BAA_895_uid58143/NC_009792.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_koseri_ATCC_BAA_895_uid58143/NC_009792.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_koseri_ATCC_BAA_895_uid58143/NC_009793.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_koseri_ATCC_BAA_895_uid58143/NC_009793.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_koseri_ATCC_BAA_895_uid58143/NC_009793.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_koseri_ATCC_BAA_895_uid58143/NC_009794.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_koseri_ATCC_BAA_895_uid58143/NC_009794.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_koseri_ATCC_BAA_895_uid58143/NC_009794.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013716.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013716.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013716.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013717.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013717.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013717.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013718.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013718.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013718.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013719.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013719.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Citrobacter_rodentium_ICC168_uid43089/NC_013719.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_NCPPB_382_uid61625/NC_009478.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_NCPPB_382_uid61625/NC_009478.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_NCPPB_382_uid61625/NC_009478.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_NCPPB_382_uid61625/NC_009479.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_NCPPB_382_uid61625/NC_009479.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_NCPPB_382_uid61625/NC_009479.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_NCPPB_382_uid61625/NC_009480.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_NCPPB_382_uid61625/NC_009480.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_NCPPB_382_uid61625/NC_009480.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_nebraskensis_NCPPB_2581_uid195908/NC_020891.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_nebraskensis_NCPPB_2581_uid195908/NC_020891.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_nebraskensis_NCPPB_2581_uid195908/NC_020891.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_sepedonicus_uid61577/NC_010399.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_sepedonicus_uid61577/NC_010399.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_sepedonicus_uid61577/NC_010399.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_sepedonicus_uid61577/NC_010407.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_sepedonicus_uid61577/NC_010407.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_sepedonicus_uid61577/NC_010407.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_sepedonicus_uid61577/NC_010408.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_sepedonicus_uid61577/NC_010408.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clavibacter_michiganensis_sepedonicus_uid61577/NC_010408.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridiales_genomosp__BVAB3_UPII9_5_uid46219/NC_013895.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridiales_genomosp__BVAB3_UPII9_5_uid46219/NC_013895.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridiales_genomosp__BVAB3_UPII9_5_uid46219/NC_013895.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_BNL1100_uid84307/NC_016791.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_BNL1100_uid84307/NC_016791.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_BNL1100_uid84307/NC_016791.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_SY8519_uid68705/NC_015737.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_SY8519_uid68705/NC_015737.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_SY8519_uid68705/NC_015737.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_ATCC_824_uid57677/NC_001988.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_ATCC_824_uid57677/NC_001988.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_ATCC_824_uid57677/NC_001988.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_ATCC_824_uid57677/NC_003030.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_ATCC_824_uid57677/NC_003030.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_ATCC_824_uid57677/NC_003030.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_DSM_1731_uid68293/NC_015686.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_DSM_1731_uid68293/NC_015686.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_DSM_1731_uid68293/NC_015686.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_DSM_1731_uid68293/NC_015687.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_DSM_1731_uid68293/NC_015687.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_DSM_1731_uid68293/NC_015687.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_DSM_1731_uid68293/NC_015688.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_DSM_1731_uid68293/NC_015688.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_DSM_1731_uid68293/NC_015688.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_EA_2018_uid159515/NC_017295.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_EA_2018_uid159515/NC_017295.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_EA_2018_uid159515/NC_017295.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_EA_2018_uid159515/NC_017296.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_EA_2018_uid159515/NC_017296.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acetobutylicum_EA_2018_uid159515/NC_017296.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acidurici_9a_uid176126/NC_018657.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acidurici_9a_uid176126/NC_018657.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acidurici_9a_uid176126/NC_018657.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acidurici_9a_uid176126/NC_018664.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acidurici_9a_uid176126/NC_018664.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_acidurici_9a_uid176126/NC_018664.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_autoethanogenum_DSM_10061_uid225029/NC_022592.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_autoethanogenum_DSM_10061_uid225029/NC_022592.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_autoethanogenum_DSM_10061_uid225029/NC_022592.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_beijerinckii_NCIMB_8052_uid58137/NC_009617.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_beijerinckii_NCIMB_8052_uid58137/NC_009617.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_beijerinckii_NCIMB_8052_uid58137/NC_009617.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A2_Kyoto_uid59229/NC_012563.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A2_Kyoto_uid59229/NC_012563.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A2_Kyoto_uid59229/NC_012563.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A3_Loch_Maree_uid59149/NC_010418.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A3_Loch_Maree_uid59149/NC_010418.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A3_Loch_Maree_uid59149/NC_010418.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A3_Loch_Maree_uid59149/NC_010520.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A3_Loch_Maree_uid59149/NC_010520.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A3_Loch_Maree_uid59149/NC_010520.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_ATCC_19397_uid58927/NC_009697.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_ATCC_19397_uid58927/NC_009697.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_ATCC_19397_uid58927/NC_009697.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_ATCC_3502_uid61579/NC_009495.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_ATCC_3502_uid61579/NC_009495.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_ATCC_3502_uid61579/NC_009495.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_ATCC_3502_uid61579/NC_009496.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_ATCC_3502_uid61579/NC_009496.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_ATCC_3502_uid61579/NC_009496.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_Hall_uid58931/NC_009698.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_Hall_uid58931/NC_009698.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_A_Hall_uid58931/NC_009698.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B1_Okra_uid59147/NC_010379.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B1_Okra_uid59147/NC_010379.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B1_Okra_uid59147/NC_010379.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B1_Okra_uid59147/NC_010516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B1_Okra_uid59147/NC_010516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B1_Okra_uid59147/NC_010516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015417.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015417.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015417.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015418.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015418.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015418.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015419.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015419.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015419.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015425.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015425.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015425.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015426.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015426.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015426.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015427.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015427.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_BKT015925_uid66203/NC_015427.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B_Eklund_17B_uid59159/NC_010674.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B_Eklund_17B_uid59159/NC_010674.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B_Eklund_17B_uid59159/NC_010674.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B_Eklund_17B_uid59159/NC_010680.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B_Eklund_17B_uid59159/NC_010680.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_B_Eklund_17B_uid59159/NC_010680.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_Ba4_657_uid59173/NC_012654.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_Ba4_657_uid59173/NC_012654.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_Ba4_657_uid59173/NC_012654.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_Ba4_657_uid59173/NC_012657.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_Ba4_657_uid59173/NC_012657.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_Ba4_657_uid59173/NC_012657.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_Ba4_657_uid59173/NC_012658.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_Ba4_657_uid59173/NC_012658.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_Ba4_657_uid59173/NC_012658.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_E3_Alaska_E43_uid59157/NC_010723.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_E3_Alaska_E43_uid59157/NC_010723.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_E3_Alaska_E43_uid59157/NC_010723.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_230613_uid159513/NC_017297.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_230613_uid159513/NC_017297.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_230613_uid159513/NC_017297.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_230613_uid159513/NC_017298.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_230613_uid159513/NC_017298.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_230613_uid159513/NC_017298.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_Langeland_uid58929/NC_009699.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_Langeland_uid58929/NC_009699.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_Langeland_uid58929/NC_009699.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_Langeland_uid58929/NC_009700.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_Langeland_uid58929/NC_009700.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_F_Langeland_uid58929/NC_009700.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_H04402_065_uid162091/NC_017299.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_H04402_065_uid162091/NC_017299.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_botulinum_H04402_065_uid162091/NC_017299.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_cellulolyticum_H10_uid58709/NC_011898.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_cellulolyticum_H10_uid58709/NC_011898.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_cellulolyticum_H10_uid58709/NC_011898.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_cellulovorans_743B_uid51503/NC_014393.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_cellulovorans_743B_uid51503/NC_014393.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_cellulovorans_743B_uid51503/NC_014393.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_cf__saccharolyticum_K10_uid197201/NC_021047.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_cf__saccharolyticum_K10_uid197201/NC_021047.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_cf__saccharolyticum_K10_uid197201/NC_021047.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_clariflavum_DSM_19732_uid82345/NC_016627.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_clariflavum_DSM_19732_uid82345/NC_016627.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_clariflavum_DSM_19732_uid82345/NC_016627.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_630_uid57679/NC_008226.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_630_uid57679/NC_008226.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_630_uid57679/NC_008226.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_630_uid57679/NC_009089.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_630_uid57679/NC_009089.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_630_uid57679/NC_009089.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_BI1_uid158363/NC_017176.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_BI1_uid158363/NC_017176.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_BI1_uid158363/NC_017176.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_BI1_uid158363/NC_017177.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_BI1_uid158363/NC_017177.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_BI1_uid158363/NC_017177.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_BI1_uid158363/NC_017179.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_BI1_uid158363/NC_017179.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_BI1_uid158363/NC_017179.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_CD196_uid41017/NC_013315.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_CD196_uid41017/NC_013315.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_CD196_uid41017/NC_013315.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_R20291_uid40921/NC_013316.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_R20291_uid40921/NC_013316.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_difficile_R20291_uid40921/NC_013316.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_DSM_555_uid58885/NC_009466.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_DSM_555_uid58885/NC_009466.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_DSM_555_uid58885/NC_009466.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_DSM_555_uid58885/NC_009706.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_DSM_555_uid58885/NC_009706.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_DSM_555_uid58885/NC_009706.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_NBRC_12016_uid59369/NC_011836.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_NBRC_12016_uid59369/NC_011836.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_NBRC_12016_uid59369/NC_011836.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_NBRC_12016_uid59369/NC_011837.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_NBRC_12016_uid59369/NC_011837.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_kluyveri_NBRC_12016_uid59369/NC_011837.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_lentocellum_DSM_5427_uid49117/NC_015275.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_lentocellum_DSM_5427_uid49117/NC_015275.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_lentocellum_DSM_5427_uid49117/NC_015275.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_ljungdahlii_DSM_13528_uid50583/NC_014328.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_ljungdahlii_DSM_13528_uid50583/NC_014328.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_ljungdahlii_DSM_13528_uid50583/NC_014328.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_novyi_NT_uid58643/NC_008593.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_novyi_NT_uid58643/NC_008593.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_novyi_NT_uid58643/NC_008593.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_pasteurianum_BC1_uid201478/NC_021182.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_pasteurianum_BC1_uid201478/NC_021182.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_pasteurianum_BC1_uid201478/NC_021182.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_pasteurianum_BC1_uid201478/NC_021183.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_pasteurianum_BC1_uid201478/NC_021183.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_pasteurianum_BC1_uid201478/NC_021183.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_13_uid57681/NC_003042.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_13_uid57681/NC_003042.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_13_uid57681/NC_003042.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_13_uid57681/NC_003366.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_13_uid57681/NC_003366.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_13_uid57681/NC_003366.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_ATCC_13124_uid57901/NC_008261.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_ATCC_13124_uid57901/NC_008261.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_ATCC_13124_uid57901/NC_008261.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008262.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008262.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008262.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008263.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008263.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008263.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008264.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008264.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008264.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008265.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008265.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_perfringens_SM101_uid58117/NC_008265.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_phytofermentans_ISDg_uid58519/NC_010001.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_phytofermentans_ISDg_uid58519/NC_010001.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_phytofermentans_ISDg_uid58519/NC_010001.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharobutylicum_DSM_13864_uid223284/NC_022571.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharobutylicum_DSM_13864_uid223284/NC_022571.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharobutylicum_DSM_13864_uid223284/NC_022571.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharolyticum_WM1_uid51419/NC_014376.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharolyticum_WM1_uid51419/NC_014376.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharolyticum_WM1_uid51419/NC_014376.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharoperbutylacetonicum_ATCC_27021_uid189747/NC_020291.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharoperbutylacetonicum_ATCC_27021_uid189747/NC_020291.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharoperbutylacetonicum_ATCC_27021_uid189747/NC_020291.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharoperbutylacetonicum_ATCC_27021_uid189747/NC_020292.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharoperbutylacetonicum_ATCC_27021_uid189747/NC_020292.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_saccharoperbutylacetonicum_ATCC_27021_uid189747/NC_020292.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_stercorarium_DSM_8532_uid186819/NC_020134.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_stercorarium_DSM_8532_uid186819/NC_020134.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_stercorarium_DSM_8532_uid186819/NC_020134.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_stercorarium_DSM_8532_uid195569/NC_020887.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_stercorarium_DSM_8532_uid195569/NC_020887.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_stercorarium_DSM_8532_uid195569/NC_020887.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_12124569_uid227214/NC_022777.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_12124569_uid227214/NC_022777.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_12124569_uid227214/NC_022777.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_12124569_uid227214/NC_022778.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_12124569_uid227214/NC_022778.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_12124569_uid227214/NC_022778.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_E88_uid57683/NC_004557.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_E88_uid57683/NC_004557.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_E88_uid57683/NC_004557.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_E88_uid57683/NC_004565.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_E88_uid57683/NC_004565.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_tetani_E88_uid57683/NC_004565.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_thermocellum_ATCC_27405_uid57917/NC_009012.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_thermocellum_ATCC_27405_uid57917/NC_009012.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_thermocellum_ATCC_27405_uid57917/NC_009012.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_thermocellum_DSM_1313_uid161989/NC_017304.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_thermocellum_DSM_1313_uid161989/NC_017304.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Clostridium_thermocellum_DSM_1313_uid161989/NC_017304.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Collimonas_fungivorans_Ter331_uid70793/NC_015856.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Collimonas_fungivorans_Ter331_uid70793/NC_015856.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Collimonas_fungivorans_Ter331_uid70793/NC_015856.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Colwellia_psychrerythraea_34H_uid57855/NC_003910.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Colwellia_psychrerythraea_34H_uid57855/NC_003910.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Colwellia_psychrerythraea_34H_uid57855/NC_003910.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Comamonadaceae_bacterium_CR_uid223378/NC_022576.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Comamonadaceae_bacterium_CR_uid223378/NC_022576.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Comamonadaceae_bacterium_CR_uid223378/NC_022576.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Comamonas_testosteroni_CNB_2_uid62961/NC_010935.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Comamonas_testosteroni_CNB_2_uid62961/NC_010935.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Comamonas_testosteroni_CNB_2_uid62961/NC_010935.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Comamonas_testosteroni_CNB_2_uid62961/NC_013446.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Comamonas_testosteroni_CNB_2_uid62961/NC_013446.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Comamonas_testosteroni_CNB_2_uid62961/NC_013446.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Conexibacter_woesei_DSM_14684_uid43467/NC_013739.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Conexibacter_woesei_DSM_14684_uid43467/NC_013739.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Conexibacter_woesei_DSM_14684_uid43467/NC_013739.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coprococcus_ART55_1_uid197176/NC_021018.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coprococcus_ART55_1_uid197176/NC_021018.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coprococcus_ART55_1_uid197176/NC_021018.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coprococcus_catus_GD_7_uid197174/NC_021009.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coprococcus_catus_GD_7_uid197174/NC_021009.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coprococcus_catus_GD_7_uid197174/NC_021009.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coprothermobacter_proteolyticus_DSM_5265_uid59253/NC_011295.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coprothermobacter_proteolyticus_DSM_5265_uid59253/NC_011295.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coprothermobacter_proteolyticus_DSM_5265_uid59253/NC_011295.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coraliomargarita_akajimensis_DSM_45221_uid47079/NC_014008.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coraliomargarita_akajimensis_DSM_45221_uid47079/NC_014008.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coraliomargarita_akajimensis_DSM_45221_uid47079/NC_014008.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corallococcus_coralloides_DSM_2259_uid157997/NC_017030.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corallococcus_coralloides_DSM_2259_uid157997/NC_017030.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corallococcus_coralloides_DSM_2259_uid157997/NC_017030.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coriobacterium_glomerans_PW2_uid65787/NC_015389.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coriobacterium_glomerans_PW2_uid65787/NC_015389.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coriobacterium_glomerans_PW2_uid65787/NC_015389.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_argentoratense_DSM_44202_uid217419/NC_022198.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_argentoratense_DSM_44202_uid217419/NC_022198.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_argentoratense_DSM_44202_uid217419/NC_022198.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_aurimucosum_ATCC_700975_uid59409/NC_010813.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_aurimucosum_ATCC_700975_uid59409/NC_010813.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_aurimucosum_ATCC_700975_uid59409/NC_010813.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_aurimucosum_ATCC_700975_uid59409/NC_012590.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_aurimucosum_ATCC_700975_uid59409/NC_012590.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_aurimucosum_ATCC_700975_uid59409/NC_012590.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_callunae_DSM_20147_uid193714/NC_020506.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_callunae_DSM_20147_uid193714/NC_020506.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_callunae_DSM_20147_uid193714/NC_020506.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_callunae_DSM_20147_uid193714/NC_020523.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_callunae_DSM_20147_uid193714/NC_020523.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_callunae_DSM_20147_uid193714/NC_020523.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_callunae_DSM_20147_uid193714/NC_020553.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_callunae_DSM_20147_uid193714/NC_020553.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_callunae_DSM_20147_uid193714/NC_020553.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_241_uid83607/NC_016782.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_241_uid83607/NC_016782.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_241_uid83607/NC_016782.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_31A_uid84309/NC_016799.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_31A_uid84309/NC_016799.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_31A_uid84309/NC_016799.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_BH8_uid84311/NC_016800.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_BH8_uid84311/NC_016800.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_BH8_uid84311/NC_016800.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_C7__beta__uid84313/NC_016801.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_C7__beta__uid84313/NC_016801.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_C7__beta__uid84313/NC_016801.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_CDCE_8392_uid84295/NC_016785.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_CDCE_8392_uid84295/NC_016785.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_CDCE_8392_uid84295/NC_016785.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC01_uid84297/NC_016786.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC01_uid84297/NC_016786.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC01_uid84297/NC_016786.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC02_uid84317/NC_016802.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC02_uid84317/NC_016802.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC02_uid84317/NC_016802.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC03_uid84299/NC_016787.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC03_uid84299/NC_016787.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC03_uid84299/NC_016787.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC04_uid84301/NC_016788.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC04_uid84301/NC_016788.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_HC04_uid84301/NC_016788.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_INCA_402_uid83605/NC_016783.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_INCA_402_uid83605/NC_016783.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_INCA_402_uid83605/NC_016783.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_NCTC_13129_uid57691/NC_002935.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_NCTC_13129_uid57691/NC_002935.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_NCTC_13129_uid57691/NC_002935.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_PW8_uid84303/NC_016789.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_PW8_uid84303/NC_016789.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_PW8_uid84303/NC_016789.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_VA01_uid84305/NC_016790.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_VA01_uid84305/NC_016790.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_diphtheriae_VA01_uid84305/NC_016790.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_efficiens_YS_314_uid62905/NC_004319.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_efficiens_YS_314_uid62905/NC_004319.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_efficiens_YS_314_uid62905/NC_004319.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_efficiens_YS_314_uid62905/NC_004320.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_efficiens_YS_314_uid62905/NC_004320.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_efficiens_YS_314_uid62905/NC_004320.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_efficiens_YS_314_uid62905/NC_004369.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_efficiens_YS_314_uid62905/NC_004369.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_efficiens_YS_314_uid62905/NC_004369.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_ATCC_13032_uid193708/NC_020519.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_ATCC_13032_uid193708/NC_020519.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_ATCC_13032_uid193708/NC_020519.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_ATCC_13032_uid57905/NC_003450.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_ATCC_13032_uid57905/NC_003450.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_ATCC_13032_uid57905/NC_003450.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_ATCC_13032_uid61611/NC_006958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_ATCC_13032_uid61611/NC_006958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_ATCC_13032_uid61611/NC_006958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_MB001_uid214793/NC_022040.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_MB001_uid214793/NC_022040.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_MB001_uid214793/NC_022040.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_R_uid58897/NC_009342.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_R_uid58897/NC_009342.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_R_uid58897/NC_009342.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_R_uid58897/NC_009343.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_R_uid58897/NC_009343.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_R_uid58897/NC_009343.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_SCgG1_uid207285/NC_021351.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_SCgG1_uid207285/NC_021351.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_SCgG1_uid207285/NC_021351.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_SCgG2_uid207286/NC_021352.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_SCgG2_uid207286/NC_021352.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_glutamicum_SCgG2_uid207286/NC_021352.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_halotolerans_YIM_70093___DSM_44683_uid189953/NC_020302.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_halotolerans_YIM_70093___DSM_44683_uid189953/NC_020302.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_halotolerans_YIM_70093___DSM_44683_uid189953/NC_020302.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_halotolerans_YIM_70093___DSM_44683_uid189953/NC_020303.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_halotolerans_YIM_70093___DSM_44683_uid189953/NC_020303.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_halotolerans_YIM_70093___DSM_44683_uid189953/NC_020303.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_jeikeium_K411_uid58399/NC_003080.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_jeikeium_K411_uid58399/NC_003080.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_jeikeium_K411_uid58399/NC_003080.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_jeikeium_K411_uid58399/NC_007164.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_jeikeium_K411_uid58399/NC_007164.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_jeikeium_K411_uid58399/NC_007164.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_kroppenstedtii_DSM_44385_uid59411/NC_012704.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_kroppenstedtii_DSM_44385_uid59411/NC_012704.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_kroppenstedtii_DSM_44385_uid59411/NC_012704.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_maris_DSM_45190_uid214081/NC_021915.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_maris_DSM_45190_uid214081/NC_021915.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_maris_DSM_45190_uid214081/NC_021915.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_maris_DSM_45190_uid214081/NC_021920.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_maris_DSM_45190_uid214081/NC_021920.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_maris_DSM_45190_uid214081/NC_021920.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_1002_uid159677/NC_017300.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_1002_uid159677/NC_017300.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_1002_uid159677/NC_017300.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_1_06_A_uid159665/NC_017308.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_1_06_A_uid159665/NC_017308.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_1_06_A_uid159665/NC_017308.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_258_uid167260/NC_017945.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_258_uid167260/NC_017945.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_258_uid167260/NC_017945.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_267_uid162175/NC_017462.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_267_uid162175/NC_017462.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_267_uid162175/NC_017462.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_316_uid89381/NC_016932.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_316_uid89381/NC_016932.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_316_uid89381/NC_016932.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_31_uid162167/NC_017730.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_31_uid162167/NC_017730.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_31_uid162167/NC_017730.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_3_99_5_uid83609/NC_016781.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_3_99_5_uid83609/NC_016781.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_3_99_5_uid83609/NC_016781.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_42_02_A_uid159669/NC_017306.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_42_02_A_uid159669/NC_017306.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_42_02_A_uid159669/NC_017306.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_C231_uid159675/NC_017301.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_C231_uid159675/NC_017301.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_C231_uid159675/NC_017301.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_CIP_52_97_uid159667/NC_017307.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_CIP_52_97_uid159667/NC_017307.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_CIP_52_97_uid159667/NC_017307.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_Cp162_uid168258/NC_018019.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_Cp162_uid168258/NC_018019.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_Cp162_uid168258/NC_018019.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_FRC41_uid50585/NC_014329.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_FRC41_uid50585/NC_014329.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_FRC41_uid50585/NC_014329.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_I19_uid159673/NC_017303.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_I19_uid159673/NC_017303.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_I19_uid159673/NC_017303.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_P54B96_uid157909/NC_017031.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_P54B96_uid157909/NC_017031.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_P54B96_uid157909/NC_017031.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_PAT10_uid159671/NC_017305.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_PAT10_uid159671/NC_017305.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_pseudotuberculosis_PAT10_uid159671/NC_017305.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_resistens_DSM_45100_uid50555/NC_015673.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_resistens_DSM_45100_uid50555/NC_015673.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_resistens_DSM_45100_uid50555/NC_015673.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_terpenotabidum_Y_11_uid210639/NC_021663.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_terpenotabidum_Y_11_uid210639/NC_021663.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_terpenotabidum_Y_11_uid210639/NC_021663.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_ulcerans_0102_uid169879/NC_018101.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_ulcerans_0102_uid169879/NC_018101.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_ulcerans_0102_uid169879/NC_018101.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_ulcerans_809_uid159659/NC_017317.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_ulcerans_809_uid159659/NC_017317.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_ulcerans_809_uid159659/NC_017317.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_ulcerans_BR_AD22_uid68291/NC_015683.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_ulcerans_BR_AD22_uid68291/NC_015683.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_ulcerans_BR_AD22_uid68291/NC_015683.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_urealyticum_DSM_7109_uid61639/NC_010545.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_urealyticum_DSM_7109_uid61639/NC_010545.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_urealyticum_DSM_7109_uid61639/NC_010545.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_urealyticum_DSM_7111_uid188688/NC_020230.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_urealyticum_DSM_7111_uid188688/NC_020230.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_urealyticum_DSM_7111_uid188688/NC_020230.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_variabile_DSM_44702_uid62003/NC_015859.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_variabile_DSM_44702_uid62003/NC_015859.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Corynebacterium_variabile_DSM_44702_uid62003/NC_015859.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_CbuG_Q212_uid58893/NC_011527.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_CbuG_Q212_uid58893/NC_011527.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_CbuG_Q212_uid58893/NC_011527.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_CbuK_Q154_uid58895/NC_011526.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_CbuK_Q154_uid58895/NC_011526.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_CbuK_Q154_uid58895/NC_011526.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_CbuK_Q154_uid58895/NC_011528.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_CbuK_Q154_uid58895/NC_011528.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_CbuK_Q154_uid58895/NC_011528.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_Dugway_5J108_111_uid58629/NC_009726.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_Dugway_5J108_111_uid58629/NC_009726.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_Dugway_5J108_111_uid58629/NC_009726.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_Dugway_5J108_111_uid58629/NC_009727.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_Dugway_5J108_111_uid58629/NC_009727.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_Dugway_5J108_111_uid58629/NC_009727.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_331_uid58637/NC_010115.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_331_uid58637/NC_010115.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_331_uid58637/NC_010115.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_331_uid58637/NC_010117.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_331_uid58637/NC_010117.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_331_uid58637/NC_010117.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_493_uid57631/NC_002971.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_493_uid57631/NC_002971.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_493_uid57631/NC_002971.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_493_uid57631/NC_004704.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_493_uid57631/NC_004704.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Coxiella_burnetii_RSA_493_uid57631/NC_004704.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019733.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019733.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019733.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019734.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019734.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019734.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019735.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019735.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019735.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019736.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019736.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019736.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019737.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019737.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019737.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019753.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019753.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019753.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019754.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019754.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019754.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019755.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019755.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019755.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019756.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019756.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Crinalium_epipsammum_PCC_9333_uid183113/NC_019756.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Croceibacter_atlanticus_HTCC2559_uid49661/NC_014230.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Croceibacter_atlanticus_HTCC2559_uid49661/NC_014230.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Croceibacter_atlanticus_HTCC2559_uid49661/NC_014230.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_45402_uid231516/NC_023024.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_45402_uid231516/NC_023024.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_45402_uid231516/NC_023024.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_45402_uid231516/NC_023025.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_45402_uid231516/NC_023025.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_45402_uid231516/NC_023025.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_45402_uid231516/NC_023032.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_45402_uid231516/NC_023032.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_45402_uid231516/NC_023032.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ATCC_BAA_894_uid58145/NC_009778.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ATCC_BAA_894_uid58145/NC_009778.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ATCC_BAA_894_uid58145/NC_009778.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ATCC_BAA_894_uid58145/NC_009779.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ATCC_BAA_894_uid58145/NC_009779.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ATCC_BAA_894_uid58145/NC_009779.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ATCC_BAA_894_uid58145/NC_009780.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ATCC_BAA_894_uid58145/NC_009780.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ATCC_BAA_894_uid58145/NC_009780.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ES15_uid167045/NC_017933.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ES15_uid167045/NC_017933.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_ES15_uid167045/NC_017933.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020260.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020260.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020260.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020261.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020261.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020261.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020262.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020262.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020262.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020263.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020263.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_sakazakii_Sp291_uid189241/NC_020263.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013282.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013282.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013282.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013283.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013283.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013283.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013284.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013284.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013284.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013285.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013285.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cronobacter_turicensis_z3032_uid40821/NC_013285.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cryptobacterium_curtum_DSM_15641_uid59041/NC_013170.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cryptobacterium_curtum_DSM_15641_uid59041/NC_013170.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cryptobacterium_curtum_DSM_15641_uid59041/NC_013170.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007971.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007971.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007971.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007972.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007972.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007972.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007973.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007973.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007973.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007974.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007974.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_metallidurans_CH34_uid57815/NC_007974.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015723.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015723.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015723.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015724.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015724.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015724.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015726.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015726.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015726.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015727.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015727.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_necator_N_1_uid68689/NC_015727.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_taiwanensis_LMG_19424_uid61615/NC_010528.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_taiwanensis_LMG_19424_uid61615/NC_010528.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_taiwanensis_LMG_19424_uid61615/NC_010528.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_taiwanensis_LMG_19424_uid61615/NC_010529.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_taiwanensis_LMG_19424_uid61615/NC_010529.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_taiwanensis_LMG_19424_uid61615/NC_010529.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_taiwanensis_LMG_19424_uid61615/NC_010530.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_taiwanensis_LMG_19424_uid61615/NC_010530.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cupriavidus_taiwanensis_LMG_19424_uid61615/NC_010530.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobacterium_aponinum_PCC_10605_uid183340/NC_019776.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobacterium_aponinum_PCC_10605_uid183340/NC_019776.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobacterium_aponinum_PCC_10605_uid183340/NC_019776.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobacterium_aponinum_PCC_10605_uid183340/NC_019777.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobacterium_aponinum_PCC_10605_uid183340/NC_019777.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobacterium_aponinum_PCC_10605_uid183340/NC_019777.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobacterium_stanieri_PCC_7202_uid183337/NC_019778.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobacterium_stanieri_PCC_7202_uid183337/NC_019778.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobacterium_stanieri_PCC_7202_uid183337/NC_019778.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobium_gracile_PCC_6307_uid182931/NC_019675.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobium_gracile_PCC_6307_uid182931/NC_019675.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanobium_gracile_PCC_6307_uid182931/NC_019675.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010539.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010539.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010539.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010541.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010541.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010541.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010542.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010542.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010542.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010543.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010543.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010543.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010546.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010546.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010546.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010547.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010547.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_ATCC_51142_uid59013/NC_010547.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011729.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011729.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011729.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011730.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011730.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011730.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011732.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011732.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011732.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011733.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011733.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011733.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011734.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011734.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011734.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011737.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011737.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011737.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011738.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011738.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7424_uid59025/NC_011738.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011880.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011880.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011880.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011882.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011882.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011882.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011884.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011884.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011884.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011885.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011885.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7425_uid59435/NC_011885.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014501.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014501.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014501.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014502.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014502.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014502.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014503.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014503.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014503.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014504.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014504.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014504.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014533.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014533.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014533.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014534.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014534.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014534.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014535.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014535.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_7822_uid52547/NC_014535.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011721.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011721.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011721.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011723.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011723.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011723.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011726.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011726.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011726.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011727.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011727.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8801_uid59027/NC_011727.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013160.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013160.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013160.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013161.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013161.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013161.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013163.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013163.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013163.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013167.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013167.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013167.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013168.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013168.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyanothece_PCC_8802_uid59143/NC_013168.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyclobacterium_marinum_DSM_745_uid71485/NC_015914.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyclobacterium_marinum_DSM_745_uid71485/NC_015914.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cyclobacterium_marinum_DSM_745_uid71485/NC_015914.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cycloclasticus_P1_uid176368/NC_018697.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cycloclasticus_P1_uid176368/NC_018697.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cycloclasticus_P1_uid176368/NC_018697.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cycloclasticus_zancles_7_ME_uid214092/NC_021917.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cycloclasticus_zancles_7_ME_uid214092/NC_021917.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cycloclasticus_zancles_7_ME_uid214092/NC_021917.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cycloclasticus_zancles_7_ME_uid214092/NC_021918.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cycloclasticus_zancles_7_ME_uid214092/NC_021918.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cycloclasticus_zancles_7_ME_uid214092/NC_021918.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_019744.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_019744.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_019744.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_019757.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_019757.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_019757.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_019758.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_019758.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_019758.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_020050.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_020050.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cylindrospermum_stagnale_PCC_7417_uid183111/NC_020050.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cytophaga_hutchinsonii_ATCC_33406_uid57651/NC_008255.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cytophaga_hutchinsonii_ATCC_33406_uid57651/NC_008255.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Cytophaga_hutchinsonii_ATCC_33406_uid57651/NC_008255.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dactylococcopsis_salina_PCC_8305_uid183341/NC_019780.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dactylococcopsis_salina_PCC_8305_uid183341/NC_019780.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dactylococcopsis_salina_PCC_8305_uid183341/NC_019780.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dechloromonas_aromatica_RCB_uid58025/NC_007298.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dechloromonas_aromatica_RCB_uid58025/NC_007298.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dechloromonas_aromatica_RCB_uid58025/NC_007298.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dechlorosoma_suillum_PS_uid81439/NC_016616.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dechlorosoma_suillum_PS_uid81439/NC_016616.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dechlorosoma_suillum_PS_uid81439/NC_016616.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deferribacter_desulfuricans_SSM1_uid46653/NC_013939.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deferribacter_desulfuricans_SSM1_uid46653/NC_013939.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deferribacter_desulfuricans_SSM1_uid46653/NC_013939.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deferribacter_desulfuricans_SSM1_uid46653/NC_013940.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deferribacter_desulfuricans_SSM1_uid46653/NC_013940.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deferribacter_desulfuricans_SSM1_uid46653/NC_013940.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalobacter_11DCA_uid177715/NC_018866.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalobacter_11DCA_uid177715/NC_018866.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalobacter_11DCA_uid177715/NC_018866.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalobacter_CF_uid177714/NC_018867.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalobacter_CF_uid177714/NC_018867.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalobacter_CF_uid177714/NC_018867.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_BAV1_uid58477/NC_009455.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_BAV1_uid58477/NC_009455.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_BAV1_uid58477/NC_009455.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_CBDB1_uid58413/NC_007356.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_CBDB1_uid58413/NC_007356.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_CBDB1_uid58413/NC_007356.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_GT_uid42115/NC_013890.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_GT_uid42115/NC_013890.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_GT_uid42115/NC_013890.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_VS_uid42393/NC_013552.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_VS_uid42393/NC_013552.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_VS_uid42393/NC_013552.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_ethenogenes_195_uid57763/NC_002936.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_ethenogenes_195_uid57763/NC_002936.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_ethenogenes_195_uid57763/NC_002936.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_mccartyi_BTF08_uid190183/NC_020387.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_mccartyi_BTF08_uid190183/NC_020387.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_mccartyi_BTF08_uid190183/NC_020387.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_mccartyi_DCMB5_uid190184/NC_020386.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_mccartyi_DCMB5_uid190184/NC_020386.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_mccartyi_DCMB5_uid190184/NC_020386.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_mccartyi_GY50_uid230266/NC_022964.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_mccartyi_GY50_uid230266/NC_022964.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalococcoides_mccartyi_GY50_uid230266/NC_022964.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalogenimonas_lykanthroporepellens_BL_DC_9_uid48131/NC_014314.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalogenimonas_lykanthroporepellens_BL_DC_9_uid48131/NC_014314.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dehalogenimonas_lykanthroporepellens_BL_DC_9_uid48131/NC_014314.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012526.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012526.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012526.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012527.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012527.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012527.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012528.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012528.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012528.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012529.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012529.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_deserti_VCD115_uid58615/NC_012529.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_geothermalis_DSM_11300_uid58275/NC_008010.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_geothermalis_DSM_11300_uid58275/NC_008010.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_geothermalis_DSM_11300_uid58275/NC_008010.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_geothermalis_DSM_11300_uid58275/NC_008025.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_geothermalis_DSM_11300_uid58275/NC_008025.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_geothermalis_DSM_11300_uid58275/NC_008025.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_geothermalis_DSM_11300_uid58275/NC_009939.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_geothermalis_DSM_11300_uid58275/NC_009939.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_geothermalis_DSM_11300_uid58275/NC_009939.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017771.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017771.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017771.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017790.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017790.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017790.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017791.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017791.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017791.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017792.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017792.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017792.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017793.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017793.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017793.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017805.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017805.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017805.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017806.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017806.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_gobiensis_I_0_uid162509/NC_017806.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_maricopensis_DSM_21211_uid62225/NC_014958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_maricopensis_DSM_21211_uid62225/NC_014958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_maricopensis_DSM_21211_uid62225/NC_014958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_peraridilitoris_DSM_19664_uid183485/NC_019789.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_peraridilitoris_DSM_19664_uid183485/NC_019789.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_peraridilitoris_DSM_19664_uid183485/NC_019789.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_peraridilitoris_DSM_19664_uid183485/NC_019790.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_peraridilitoris_DSM_19664_uid183485/NC_019790.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_peraridilitoris_DSM_19664_uid183485/NC_019790.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_peraridilitoris_DSM_19664_uid183485/NC_019793.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_peraridilitoris_DSM_19664_uid183485/NC_019793.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_peraridilitoris_DSM_19664_uid183485/NC_019793.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015161.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015161.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015161.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015162.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015162.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015162.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015163.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015163.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015163.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015169.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015169.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015169.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015170.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015170.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_proteolyticus_MRP_uid63399/NC_015170.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_000958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_000958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_000958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_000959.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_000959.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_000959.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_001263.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_001263.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_001263.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_001264.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_001264.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Deinococcus_radiodurans_R1_uid57665/NC_001264.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Delftia_Cs1_4_uid67319/NC_015563.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Delftia_Cs1_4_uid67319/NC_015563.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Delftia_Cs1_4_uid67319/NC_015563.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Delftia_acidovorans_SPH_1_uid58703/NC_010002.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Delftia_acidovorans_SPH_1_uid58703/NC_010002.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Delftia_acidovorans_SPH_1_uid58703/NC_010002.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Denitrovibrio_acetiphilus_DSM_12809_uid46657/NC_013943.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Denitrovibrio_acetiphilus_DSM_12809_uid46657/NC_013943.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Denitrovibrio_acetiphilus_DSM_12809_uid46657/NC_013943.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfarculus_baarsii_DSM_2075_uid51371/NC_014365.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfarculus_baarsii_DSM_2075_uid51371/NC_014365.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfarculus_baarsii_DSM_2075_uid51371/NC_014365.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfatibacillum_alkenivorans_AK_01_uid58913/NC_011768.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfatibacillum_alkenivorans_AK_01_uid58913/NC_011768.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfatibacillum_alkenivorans_AK_01_uid58913/NC_011768.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_dehalogenans_ATCC_51507_uid82553/NC_018017.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_dehalogenans_ATCC_51507_uid82553/NC_018017.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_dehalogenans_ATCC_51507_uid82553/NC_018017.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_dichloroeliminans_LMG_P_21439_uid82555/NC_019903.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_dichloroeliminans_LMG_P_21439_uid82555/NC_019903.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_dichloroeliminans_LMG_P_21439_uid82555/NC_019903.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_hafniense_DCB_2_uid57749/NC_011830.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_hafniense_DCB_2_uid57749/NC_011830.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_hafniense_DCB_2_uid57749/NC_011830.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_hafniense_Y51_uid58605/NC_007907.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_hafniense_Y51_uid58605/NC_007907.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfitobacterium_hafniense_Y51_uid58605/NC_007907.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacca_acetoxidans_DSM_11109_uid65785/NC_015388.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacca_acetoxidans_DSM_11109_uid65785/NC_015388.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacca_acetoxidans_DSM_11109_uid65785/NC_015388.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacterium_autotrophicum_HRM2_uid59061/NC_012108.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacterium_autotrophicum_HRM2_uid59061/NC_012108.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacterium_autotrophicum_HRM2_uid59061/NC_012108.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacterium_autotrophicum_HRM2_uid59061/NC_012109.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacterium_autotrophicum_HRM2_uid59061/NC_012109.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacterium_autotrophicum_HRM2_uid59061/NC_012109.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacula_toluolica_Tol2_uid175777/NC_018645.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacula_toluolica_Tol2_uid175777/NC_018645.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobacula_toluolica_Tol2_uid175777/NC_018645.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobulbus_propionicus_DSM_2032_uid62265/NC_014972.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobulbus_propionicus_DSM_2032_uid62265/NC_014972.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfobulbus_propionicus_DSM_2032_uid62265/NC_014972.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfocapsa_sulfexigens_DSM_10523_uid189952/NC_020304.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfocapsa_sulfexigens_DSM_10523_uid189952/NC_020304.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfocapsa_sulfexigens_DSM_10523_uid189952/NC_020304.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfocapsa_sulfexigens_DSM_10523_uid189952/NC_020305.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfocapsa_sulfexigens_DSM_10523_uid189952/NC_020305.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfocapsa_sulfexigens_DSM_10523_uid189952/NC_020305.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfococcus_oleovorans_Hxd3_uid58777/NC_009943.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfococcus_oleovorans_Hxd3_uid58777/NC_009943.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfococcus_oleovorans_Hxd3_uid58777/NC_009943.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfohalobium_retbaense_DSM_5692_uid59183/NC_013223.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfohalobium_retbaense_DSM_5692_uid59183/NC_013223.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfohalobium_retbaense_DSM_5692_uid59183/NC_013223.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfohalobium_retbaense_DSM_5692_uid59183/NC_013224.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfohalobium_retbaense_DSM_5692_uid59183/NC_013224.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfohalobium_retbaense_DSM_5692_uid59183/NC_013224.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfomicrobium_baculatum_DSM_4028_uid59217/NC_013173.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfomicrobium_baculatum_DSM_4028_uid59217/NC_013173.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfomicrobium_baculatum_DSM_4028_uid59217/NC_013173.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfomonile_tiedjei_DSM_6799_uid168320/NC_018025.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfomonile_tiedjei_DSM_6799_uid168320/NC_018025.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfomonile_tiedjei_DSM_6799_uid168320/NC_018025.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfomonile_tiedjei_DSM_6799_uid168320/NC_018026.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfomonile_tiedjei_DSM_6799_uid168320/NC_018026.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfomonile_tiedjei_DSM_6799_uid168320/NC_018026.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_acidiphilus_SJ4_uid156759/NC_018066.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_acidiphilus_SJ4_uid156759/NC_018066.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_acidiphilus_SJ4_uid156759/NC_018066.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_acidiphilus_SJ4_uid156759/NC_018067.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_acidiphilus_SJ4_uid156759/NC_018067.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_acidiphilus_SJ4_uid156759/NC_018067.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_acidiphilus_SJ4_uid156759/NC_018068.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_acidiphilus_SJ4_uid156759/NC_018068.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_acidiphilus_SJ4_uid156759/NC_018068.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_meridiei_DSM_13257_uid75097/NC_018515.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_meridiei_DSM_13257_uid75097/NC_018515.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_meridiei_DSM_13257_uid75097/NC_018515.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_orientis_DSM_765_uid82939/NC_016584.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_orientis_DSM_765_uid82939/NC_016584.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfosporosinus_orientis_DSM_765_uid82939/NC_016584.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotalea_psychrophila_LSv54_uid58153/NC_006138.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotalea_psychrophila_LSv54_uid58153/NC_006138.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotalea_psychrophila_LSv54_uid58153/NC_006138.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotalea_psychrophila_LSv54_uid58153/NC_006139.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotalea_psychrophila_LSv54_uid58153/NC_006139.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotalea_psychrophila_LSv54_uid58153/NC_006139.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotalea_psychrophila_LSv54_uid58153/NC_006140.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotalea_psychrophila_LSv54_uid58153/NC_006140.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotalea_psychrophila_LSv54_uid58153/NC_006140.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_acetoxidans_DSM_771_uid59109/NC_013216.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_acetoxidans_DSM_771_uid59109/NC_013216.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_acetoxidans_DSM_771_uid59109/NC_013216.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_carboxydivorans_CO_1_SRB_uid67317/NC_015565.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_carboxydivorans_CO_1_SRB_uid67317/NC_015565.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_carboxydivorans_CO_1_SRB_uid67317/NC_015565.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_gibsoniae_DSM_7213_uid76945/NC_021184.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_gibsoniae_DSM_7213_uid76945/NC_021184.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_gibsoniae_DSM_7213_uid76945/NC_021184.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_kuznetsovii_DSM_6115_uid67357/NC_015573.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_kuznetsovii_DSM_6115_uid67357/NC_015573.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_kuznetsovii_DSM_6115_uid67357/NC_015573.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_reducens_MI_1_uid58277/NC_009253.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_reducens_MI_1_uid58277/NC_009253.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_reducens_MI_1_uid58277/NC_009253.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_ruminis_DSM_2154_uid67507/NC_015589.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_ruminis_DSM_2154_uid67507/NC_015589.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfotomaculum_ruminis_DSM_2154_uid67507/NC_015589.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_aespoeensis_Aspo_2_uid42613/NC_014844.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_aespoeensis_Aspo_2_uid42613/NC_014844.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_aespoeensis_Aspo_2_uid42613/NC_014844.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_africanus_Walvis_Bay_uid66847/NC_016629.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_africanus_Walvis_Bay_uid66847/NC_016629.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_africanus_Walvis_Bay_uid66847/NC_016629.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_alaskensis_G20_uid57941/NC_007519.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_alaskensis_G20_uid57941/NC_007519.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_alaskensis_G20_uid57941/NC_007519.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_desulfuricans_ATCC_27774_uid59213/NC_011883.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_desulfuricans_ATCC_27774_uid59213/NC_011883.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_desulfuricans_ATCC_27774_uid59213/NC_011883.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_desulfuricans_ND132_uid63159/NC_016803.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_desulfuricans_ND132_uid63159/NC_016803.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_desulfuricans_ND132_uid63159/NC_016803.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_gigas_DSM_1382_uid221293/NC_022436.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_gigas_DSM_1382_uid221293/NC_022436.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_gigas_DSM_1382_uid221293/NC_022436.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_gigas_DSM_1382_uid221293/NC_022444.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_gigas_DSM_1382_uid221293/NC_022444.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_gigas_DSM_1382_uid221293/NC_022444.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_019953.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_019953.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_019953.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_020055.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_020055.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_020055.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_022578.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_022578.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_022578.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_022579.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_022579.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_hydrothermalis_AM13___DSM_14728_uid184831/NC_022579.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_magneticus_RS_1_uid59309/NC_012795.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_magneticus_RS_1_uid59309/NC_012795.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_magneticus_RS_1_uid59309/NC_012795.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_magneticus_RS_1_uid59309/NC_012796.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_magneticus_RS_1_uid59309/NC_012796.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_magneticus_RS_1_uid59309/NC_012796.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_magneticus_RS_1_uid59309/NC_012797.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_magneticus_RS_1_uid59309/NC_012797.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_magneticus_RS_1_uid59309/NC_012797.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_piezophilus_C1TLV30_uid190704/NC_020409.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_piezophilus_C1TLV30_uid190704/NC_020409.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_piezophilus_C1TLV30_uid190704/NC_020409.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_salexigens_DSM_2638_uid59223/NC_012881.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_salexigens_DSM_2638_uid59223/NC_012881.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_salexigens_DSM_2638_uid59223/NC_012881.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_DP4_uid58679/NC_008741.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_DP4_uid58679/NC_008741.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_DP4_uid58679/NC_008741.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_DP4_uid58679/NC_008751.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_DP4_uid58679/NC_008751.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_DP4_uid58679/NC_008751.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_Hildenborough_uid57645/NC_002937.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_Hildenborough_uid57645/NC_002937.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_Hildenborough_uid57645/NC_002937.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_Hildenborough_uid57645/NC_005863.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_Hildenborough_uid57645/NC_005863.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_Hildenborough_uid57645/NC_005863.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_RCH1_uid161961/NC_017310.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_RCH1_uid161961/NC_017310.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_RCH1_uid161961/NC_017310.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_RCH1_uid161961/NC_017311.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_RCH1_uid161961/NC_017311.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris_RCH1_uid161961/NC_017311.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris__Miyazaki_F__uid59089/NC_011769.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris__Miyazaki_F__uid59089/NC_011769.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfovibrio_vulgaris__Miyazaki_F__uid59089/NC_011769.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfurispirillum_indicum_S5_uid45897/NC_014836.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfurispirillum_indicum_S5_uid45897/NC_014836.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfurispirillum_indicum_S5_uid45897/NC_014836.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfurivibrio_alkaliphilus_AHT2_uid49487/NC_014216.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfurivibrio_alkaliphilus_AHT2_uid49487/NC_014216.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Desulfurivibrio_alkaliphilus_AHT2_uid49487/NC_014216.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dichelobacter_nodosus_VCS1703A_uid57643/NC_009446.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dichelobacter_nodosus_VCS1703A_uid57643/NC_009446.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dichelobacter_nodosus_VCS1703A_uid57643/NC_009446.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_dadantii_3937_uid52537/NC_014500.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_dadantii_3937_uid52537/NC_014500.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_dadantii_3937_uid52537/NC_014500.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_dadantii_Ech586_uid42519/NC_013592.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_dadantii_Ech586_uid42519/NC_013592.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_dadantii_Ech586_uid42519/NC_013592.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_dadantii_Ech703_uid59363/NC_012880.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_dadantii_Ech703_uid59363/NC_012880.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_dadantii_Ech703_uid59363/NC_012880.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_zeae_Ech1591_uid59297/NC_012912.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_zeae_Ech1591_uid59297/NC_012912.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dickeya_zeae_Ech1591_uid59297/NC_012912.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dictyoglomus_thermophilum_H_6_12_uid59439/NC_011297.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dictyoglomus_thermophilum_H_6_12_uid59439/NC_011297.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dictyoglomus_thermophilum_H_6_12_uid59439/NC_011297.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dictyoglomus_turgidum_DSM_6724_uid59177/NC_011661.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dictyoglomus_turgidum_DSM_6724_uid59177/NC_011661.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dictyoglomus_turgidum_DSM_6724_uid59177/NC_011661.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009952.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009952.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009952.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009955.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009955.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009955.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009956.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009956.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009956.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009957.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009957.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009957.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009959.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009959.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dinoroseobacter_shibae_DFL_12_uid58707/NC_009959.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dyadobacter_fermentans_DSM_18053_uid59049/NC_013037.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dyadobacter_fermentans_DSM_18053_uid59049/NC_013037.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Dyadobacter_fermentans_DSM_18053_uid59049/NC_013037.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Echinicola_vietnamensis_DSM_17526_uid184076/NC_019904.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Echinicola_vietnamensis_DSM_17526_uid184076/NC_019904.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Echinicola_vietnamensis_DSM_17526_uid184076/NC_019904.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ectothiorhodospiraceae_bacterium_M19_40_uid199898/NC_021291.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ectothiorhodospiraceae_bacterium_M19_40_uid199898/NC_021291.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ectothiorhodospiraceae_bacterium_M19_40_uid199898/NC_021291.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_ictaluri_93_146_uid59403/NC_012779.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_ictaluri_93_146_uid59403/NC_012779.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_ictaluri_93_146_uid59403/NC_012779.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_C07_087_uid193773/NC_020796.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_C07_087_uid193773/NC_020796.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_C07_087_uid193773/NC_020796.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_EIB202_uid41819/NC_013508.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_EIB202_uid41819/NC_013508.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_EIB202_uid41819/NC_013508.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_EIB202_uid41819/NC_013509.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_EIB202_uid41819/NC_013509.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_EIB202_uid41819/NC_013509.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_FL6_60_uid159657/NC_017309.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_FL6_60_uid159657/NC_017309.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_FL6_60_uid159657/NC_017309.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_FL6_60_uid159657/NC_017318.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_FL6_60_uid159657/NC_017318.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Edwardsiella_tarda_FL6_60_uid159657/NC_017318.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eggerthella_YY7918_uid68707/NC_015738.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eggerthella_YY7918_uid68707/NC_015738.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eggerthella_YY7918_uid68707/NC_015738.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eggerthella_lenta_DSM_2243_uid59079/NC_013204.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eggerthella_lenta_DSM_2243_uid59079/NC_013204.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eggerthella_lenta_DSM_2243_uid59079/NC_013204.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_canis_Jake_uid58071/NC_007354.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_canis_Jake_uid58071/NC_007354.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_canis_Jake_uid58071/NC_007354.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_chaffeensis_Arkansas_uid57933/NC_007799.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_chaffeensis_Arkansas_uid57933/NC_007799.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_chaffeensis_Arkansas_uid57933/NC_007799.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_muris_AS145_uid232250/NC_023063.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_muris_AS145_uid232250/NC_023063.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_muris_AS145_uid232250/NC_023063.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_ruminantium_Gardel_uid58245/NC_006831.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_ruminantium_Gardel_uid58245/NC_006831.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_ruminantium_Gardel_uid58245/NC_006831.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_ruminantium_Welgevonden_uid58013/NC_005295.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_ruminantium_Welgevonden_uid58013/NC_005295.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_ruminantium_Welgevonden_uid58013/NC_005295.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_ruminantium_Welgevonden_uid58243/NC_006832.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_ruminantium_Welgevonden_uid58243/NC_006832.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ehrlichia_ruminantium_Welgevonden_uid58243/NC_006832.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Elusimicrobium_minutum_Pei191_uid58949/NC_010644.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Elusimicrobium_minutum_Pei191_uid58949/NC_010644.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Elusimicrobium_minutum_Pei191_uid58949/NC_010644.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018742.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018742.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018742.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018743.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018743.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018743.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018744.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018744.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018744.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018745.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018745.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018745.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018748.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018748.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018748.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018749.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018749.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Emticicia_oligotrophica_DSM_17448_uid177079/NC_018749.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_638_uid58727/NC_009425.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_638_uid58727/NC_009425.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_638_uid58727/NC_009425.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_638_uid58727/NC_009436.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_638_uid58727/NC_009436.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_638_uid58727/NC_009436.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_R4_368_uid208672/NC_021492.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_R4_368_uid208672/NC_021492.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_R4_368_uid208672/NC_021492.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_R4_368_uid208672/NC_021500.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_R4_368_uid208672/NC_021500.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_R4_368_uid208672/NC_021500.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_EA1509E_uid187411/NC_020180.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_EA1509E_uid187411/NC_020180.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_EA1509E_uid187411/NC_020180.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_EA1509E_uid187411/NC_020181.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_EA1509E_uid187411/NC_020181.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_EA1509E_uid187411/NC_020181.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_EA1509E_uid187411/NC_020182.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_EA1509E_uid187411/NC_020182.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_EA1509E_uid187411/NC_020182.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_KCTC_2190_uid68103/NC_015663.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_KCTC_2190_uid68103/NC_015663.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_aerogenes_KCTC_2190_uid68103/NC_015663.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_asburiae_LF7a_uid72793/NC_015963.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_asburiae_LF7a_uid72793/NC_015963.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_asburiae_LF7a_uid72793/NC_015963.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_asburiae_LF7a_uid72793/NC_015968.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_asburiae_LF7a_uid72793/NC_015968.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_asburiae_LF7a_uid72793/NC_015968.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_asburiae_LF7a_uid72793/NC_015969.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_asburiae_LF7a_uid72793/NC_015969.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_asburiae_LF7a_uid72793/NC_015969.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ATCC_13047_uid48363/NC_014107.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ATCC_13047_uid48363/NC_014107.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ATCC_13047_uid48363/NC_014107.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ATCC_13047_uid48363/NC_014108.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ATCC_13047_uid48363/NC_014108.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ATCC_13047_uid48363/NC_014108.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ATCC_13047_uid48363/NC_014121.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ATCC_13047_uid48363/NC_014121.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ATCC_13047_uid48363/NC_014121.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ENHKU01_uid172463/NC_018405.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ENHKU01_uid172463/NC_018405.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_ENHKU01_uid172463/NC_018405.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_EcWSU1_uid80739/NC_016514.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_EcWSU1_uid80739/NC_016514.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_EcWSU1_uid80739/NC_016514.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_EcWSU1_uid80739/NC_016515.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_EcWSU1_uid80739/NC_016515.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_EcWSU1_uid80739/NC_016515.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_NCTC_9394_uid197202/NC_021046.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_NCTC_9394_uid197202/NC_021046.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_NCTC_9394_uid197202/NC_021046.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_SCF1_uid59969/NC_014618.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_SCF1_uid59969/NC_014618.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_SCF1_uid59969/NC_014618.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_dissolvens_SDM_uid168997/NC_018079.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_dissolvens_SDM_uid168997/NC_018079.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacter_cloacae_dissolvens_SDM_uid168997/NC_018079.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacteriaceae_bacterium_FGI_57_uid185181/NC_020063.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacteriaceae_bacterium_FGI_57_uid185181/NC_020063.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterobacteriaceae_bacterium_FGI_57_uid185181/NC_020063.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_7L76_uid197170/NC_021023.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_7L76_uid197170/NC_021023.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_7L76_uid197170/NC_021023.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_casseliflavus_EC20_uid55693/NC_020995.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_casseliflavus_EC20_uid55693/NC_020995.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_casseliflavus_EC20_uid55693/NC_020995.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017312.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017312.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017312.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017313.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017313.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017313.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017314.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017314.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017314.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017315.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017315.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017315.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017732.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017732.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_62_uid159663/NC_017732.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_D32_uid171261/NC_018221.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_D32_uid171261/NC_018221.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_D32_uid171261/NC_018221.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_D32_uid171261/NC_018222.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_D32_uid171261/NC_018222.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_D32_uid171261/NC_018222.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_D32_uid171261/NC_018223.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_D32_uid171261/NC_018223.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_D32_uid171261/NC_018223.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_OG1RF_uid54927/NC_017316.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_OG1RF_uid54927/NC_017316.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_OG1RF_uid54927/NC_017316.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_Symbioflor_1_uid183342/NC_019770.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_Symbioflor_1_uid183342/NC_019770.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_Symbioflor_1_uid183342/NC_019770.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004668.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004668.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004668.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004669.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004669.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004669.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004670.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004670.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004670.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004671.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004671.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecalis_V583_uid57669/NC_004671.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017022.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017022.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017022.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017023.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017023.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017023.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017024.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017024.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017024.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017032.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017032.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0004_uid87025/NC_017032.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021987.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021987.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021987.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021988.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021988.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021988.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021989.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021989.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021989.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021990.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021990.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021990.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021994.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021994.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021994.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021995.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021995.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021995.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021996.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021996.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_Aus0085_uid214432/NC_021996.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017960.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017960.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017960.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017961.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017961.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017961.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017962.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017962.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017962.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017963.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017963.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_DO_uid55353/NC_017963.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_NRRL_B_2354_uid188477/NC_020207.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_NRRL_B_2354_uid188477/NC_020207.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_NRRL_B_2354_uid188477/NC_020207.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_NRRL_B_2354_uid188477/NC_020208.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_NRRL_B_2354_uid188477/NC_020208.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_faecium_NRRL_B_2354_uid188477/NC_020208.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_hirae_ATCC_9790_uid70619/NC_015845.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_hirae_ATCC_9790_uid70619/NC_015845.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_hirae_ATCC_9790_uid70619/NC_015845.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_hirae_ATCC_9790_uid70619/NC_018081.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_hirae_ATCC_9790_uid70619/NC_018081.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_hirae_ATCC_9790_uid70619/NC_018081.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022878.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022878.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022878.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022879.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022879.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022879.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022880.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022880.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022880.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022881.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022881.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022881.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022883.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022883.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022883.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022884.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022884.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Enterococcus_mundtii_QU_25_uid229420/NC_022884.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017442.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017442.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017442.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017443.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017443.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017443.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017444.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017444.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017444.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017445.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017445.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017445.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017446.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017446.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017446.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017447.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017447.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_Ejp617_uid159955/NC_017447.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_ATCC_49946_uid46943/NC_013971.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_ATCC_49946_uid46943/NC_013971.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_ATCC_49946_uid46943/NC_013971.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_ATCC_49946_uid46943/NC_013972.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_ATCC_49946_uid46943/NC_013972.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_ATCC_49946_uid46943/NC_013972.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_ATCC_49946_uid46943/NC_013973.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_ATCC_49946_uid46943/NC_013973.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_ATCC_49946_uid46943/NC_013973.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_CFBP1430_uid46839/NC_013957.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_CFBP1430_uid46839/NC_013957.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_CFBP1430_uid46839/NC_013957.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_CFBP1430_uid46839/NC_013961.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_CFBP1430_uid46839/NC_013961.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_amylovora_CFBP1430_uid46839/NC_013961.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_billingiae_Eb661_uid50547/NC_014304.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_billingiae_Eb661_uid50547/NC_014304.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_billingiae_Eb661_uid50547/NC_014304.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_billingiae_Eb661_uid50547/NC_014305.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_billingiae_Eb661_uid50547/NC_014305.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_billingiae_Eb661_uid50547/NC_014305.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_billingiae_Eb661_uid50547/NC_014306.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_billingiae_Eb661_uid50547/NC_014306.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_billingiae_Eb661_uid50547/NC_014306.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017388.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017388.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017388.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017389.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017389.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017389.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017390.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017390.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017390.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017391.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017391.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017391.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017392.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017392.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_DSM_12163_uid159693/NC_017392.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_012214.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_012214.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_012214.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013263.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013263.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013263.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013264.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013264.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013264.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013265.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013265.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013265.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013954.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013954.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_pyrifoliae_Ep1_96_uid40659/NC_013954.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010693.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010693.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010693.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010694.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010694.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010694.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010695.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010695.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010695.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010696.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010696.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010696.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010697.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010697.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010697.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010699.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010699.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erwinia_tasmaniensis_Et1_99_uid59029/NC_010699.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erysipelothrix_rhusiopathiae_Fujisawa_uid68021/NC_015601.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erysipelothrix_rhusiopathiae_Fujisawa_uid68021/NC_015601.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erysipelothrix_rhusiopathiae_Fujisawa_uid68021/NC_015601.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erysipelothrix_rhusiopathiae_SY1027_uid206518/NC_021354.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erysipelothrix_rhusiopathiae_SY1027_uid206518/NC_021354.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erysipelothrix_rhusiopathiae_SY1027_uid206518/NC_021354.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erythrobacter_litoralis_HTCC2594_uid58299/NC_007722.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erythrobacter_litoralis_HTCC2594_uid58299/NC_007722.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Erythrobacter_litoralis_HTCC2594_uid58299/NC_007722.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_blattae_DSM_4481_uid165043/NC_017910.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_blattae_DSM_4481_uid165043/NC_017910.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_blattae_DSM_4481_uid165043/NC_017910.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_042_uid161985/NC_017626.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_042_uid161985/NC_017626.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_042_uid161985/NC_017626.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_042_uid161985/NC_017627.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_042_uid161985/NC_017627.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_042_uid161985/NC_017627.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_536_uid58531/NC_008253.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_536_uid58531/NC_008253.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_536_uid58531/NC_008253.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_55989_uid59383/NC_011748.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_55989_uid59383/NC_011748.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_55989_uid59383/NC_011748.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ABU_83972_uid161975/NC_017629.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ABU_83972_uid161975/NC_017629.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ABU_83972_uid161975/NC_017629.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ABU_83972_uid161975/NC_017631.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ABU_83972_uid161975/NC_017631.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ABU_83972_uid161975/NC_017631.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O1_uid58623/NC_008563.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O1_uid58623/NC_008563.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O1_uid58623/NC_008563.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O1_uid58623/NC_009837.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O1_uid58623/NC_009837.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O1_uid58623/NC_009837.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O1_uid58623/NC_009838.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O1_uid58623/NC_009838.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O1_uid58623/NC_009838.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O78_uid187277/NC_020163.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O78_uid187277/NC_020163.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_APEC_O78_uid187277/NC_020163.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ATCC_8739_uid58783/NC_010468.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ATCC_8739_uid58783/NC_010468.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ATCC_8739_uid58783/NC_010468.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_BL21_DE3__uid161947/NC_012971.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_BL21_DE3__uid161947/NC_012971.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_BL21_DE3__uid161947/NC_012971.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_BL21_DE3__uid161949/NC_012892.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_BL21_DE3__uid161949/NC_012892.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_BL21_DE3__uid161949/NC_012892.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_BW2952_uid59391/NC_012759.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_BW2952_uid59391/NC_012759.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_BW2952_uid59391/NC_012759.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_B_REL606_uid58803/NC_012967.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_B_REL606_uid58803/NC_012967.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_B_REL606_uid58803/NC_012967.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_CFT073_uid57915/NC_004431.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_CFT073_uid57915/NC_004431.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_CFT073_uid57915/NC_004431.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_DH1_uid161951/NC_017625.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_DH1_uid161951/NC_017625.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_DH1_uid161951/NC_017625.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_DH1_uid162051/NC_017638.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_DH1_uid162051/NC_017638.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_DH1_uid162051/NC_017638.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009786.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009786.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009786.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009787.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009787.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009787.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009788.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009788.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009788.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009789.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009789.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009789.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009790.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009790.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009790.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009791.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009791.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009791.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009801.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009801.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_E24377A_uid58395/NC_009801.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ED1a_uid59379/NC_011745.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ED1a_uid59379/NC_011745.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ED1a_uid59379/NC_011745.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017633.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017633.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017633.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017721.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017721.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017721.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017722.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017722.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017722.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017723.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017723.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017723.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017724.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017724.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_ETEC_H10407_uid161993/NC_017724.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_HS_uid58393/NC_009800.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_HS_uid58393/NC_009800.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_HS_uid58393/NC_009800.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_IAI1_uid59377/NC_011741.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_IAI1_uid59377/NC_011741.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_IAI1_uid59377/NC_011741.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_IAI39_uid59381/NC_011750.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_IAI39_uid59381/NC_011750.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_IAI39_uid59381/NC_011750.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_IHE3034_uid162007/NC_017628.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_IHE3034_uid162007/NC_017628.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_IHE3034_uid162007/NC_017628.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022648.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022648.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022648.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022649.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022649.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022649.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022650.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022650.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022650.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022651.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022651.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022651.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022661.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022661.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022661.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022662.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022662.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_JJ1886_uid226103/NC_022662.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid162099/NC_017660.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid162099/NC_017660.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid162099/NC_017660.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid162099/NC_017661.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid162099/NC_017661.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid162099/NC_017661.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid52593/NC_016902.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid52593/NC_016902.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid52593/NC_016902.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid52593/NC_016903.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid52593/NC_016903.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid52593/NC_016903.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid52593/NC_016904.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid52593/NC_016904.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_KO11FL_uid52593/NC_016904.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__DH10B_uid58979/NC_010473.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__DH10B_uid58979/NC_010473.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__DH10B_uid58979/NC_010473.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__MDS42_uid193705/NC_020518.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__MDS42_uid193705/NC_020518.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__MDS42_uid193705/NC_020518.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__MG1655_uid57779/NC_000913.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__MG1655_uid57779/NC_000913.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__MG1655_uid57779/NC_000913.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__W3110_uid161931/NC_007779.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__W3110_uid161931/NC_007779.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_K_12_substr__W3110_uid161931/NC_007779.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_LF82_uid161965/NC_011993.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_LF82_uid161965/NC_011993.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_LF82_uid161965/NC_011993.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_LY180_uid219461/NC_022364.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_LY180_uid219461/NC_022364.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_LY180_uid219461/NC_022364.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_NA114_uid162139/NC_017644.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_NA114_uid162139/NC_017644.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_NA114_uid162139/NC_017644.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O103_H2_12009_uid41013/NC_013353.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O103_H2_12009_uid41013/NC_013353.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O103_H2_12009_uid41013/NC_013353.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O103_H2_12009_uid41013/NC_013354.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O103_H2_12009_uid41013/NC_013354.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O103_H2_12009_uid41013/NC_013354.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018650.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018650.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018650.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018651.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018651.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018651.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018652.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018652.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018652.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018654.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018654.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2050_uid175905/NC_018654.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2071_uid176128/NC_018661.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2071_uid176128/NC_018661.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2071_uid176128/NC_018661.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2071_uid176128/NC_018662.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2071_uid176128/NC_018662.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2071_uid176128/NC_018662.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2071_uid176128/NC_018663.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2071_uid176128/NC_018663.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2009EL_2071_uid176128/NC_018663.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018658.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018658.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018658.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018659.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018659.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018659.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018660.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018660.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018660.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018666.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018666.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O104_H4_2011C_3493_uid176127/NC_018666.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013364.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013364.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013364.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013365.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013365.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013365.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013366.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013366.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013366.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013367.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013367.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013367.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013368.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013368.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013368.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013370.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013370.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O111_H__11128_uid41023/NC_013370.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O127_H6_E2348_69_uid59343/NC_011601.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O127_H6_E2348_69_uid59343/NC_011601.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O127_H6_E2348_69_uid59343/NC_011601.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O127_H6_E2348_69_uid59343/NC_011602.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O127_H6_E2348_69_uid59343/NC_011602.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O127_H6_E2348_69_uid59343/NC_011602.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O127_H6_E2348_69_uid59343/NC_011603.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O127_H6_E2348_69_uid59343/NC_011603.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O127_H6_E2348_69_uid59343/NC_011603.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EC4115_uid59091/NC_011350.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EC4115_uid59091/NC_011350.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EC4115_uid59091/NC_011350.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EC4115_uid59091/NC_011351.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EC4115_uid59091/NC_011351.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EC4115_uid59091/NC_011351.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EC4115_uid59091/NC_011353.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EC4115_uid59091/NC_011353.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EC4115_uid59091/NC_011353.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EDL933_uid57831/NC_002655.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EDL933_uid57831/NC_002655.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EDL933_uid57831/NC_002655.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EDL933_uid57831/NC_007414.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EDL933_uid57831/NC_007414.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_EDL933_uid57831/NC_007414.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_TW14359_uid59235/NC_013008.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_TW14359_uid59235/NC_013008.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_TW14359_uid59235/NC_013008.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_TW14359_uid59235/NC_013010.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_TW14359_uid59235/NC_013010.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_TW14359_uid59235/NC_013010.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_uid57781/NC_002127.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_uid57781/NC_002127.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_uid57781/NC_002127.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_uid57781/NC_002128.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_uid57781/NC_002128.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_uid57781/NC_002128.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_uid57781/NC_002695.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_uid57781/NC_002695.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O157_H7_uid57781/NC_002695.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013361.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013361.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013361.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013362.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013362.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013362.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013363.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013363.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013363.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013369.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013369.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_013369.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_014543.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_014543.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O26_H11_11368_uid41021/NC_014543.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_CB9615_uid46655/NC_013941.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_CB9615_uid46655/NC_013941.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_CB9615_uid46655/NC_013941.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_CB9615_uid46655/NC_013942.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_CB9615_uid46655/NC_013942.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_CB9615_uid46655/NC_013942.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017653.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017653.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017653.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017654.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017654.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017654.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017655.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017655.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017655.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017656.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017656.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017656.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017657.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017657.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017657.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017658.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017658.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O55_H7_RM12579_uid162153/NC_017658.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017646.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017646.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017646.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017647.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017647.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017647.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017648.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017648.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017648.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017649.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017649.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017649.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017650.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017650.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O7_K1_CE10_uid162115/NC_017650.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O83_H1_NRG_857C_uid161987/NC_017634.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O83_H1_NRG_857C_uid161987/NC_017634.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O83_H1_NRG_857C_uid161987/NC_017634.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O83_H1_NRG_857C_uid161987/NC_017659.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O83_H1_NRG_857C_uid161987/NC_017659.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_O83_H1_NRG_857C_uid161987/NC_017659.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_P12b_uid162061/NC_017663.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_P12b_uid162061/NC_017663.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_P12b_uid162061/NC_017663.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_PMV_1_uid219679/NC_022370.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_PMV_1_uid219679/NC_022370.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_PMV_1_uid219679/NC_022370.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_PMV_1_uid219679/NC_022371.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_PMV_1_uid219679/NC_022371.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_PMV_1_uid219679/NC_022371.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_S88_uid62979/NC_011742.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_S88_uid62979/NC_011742.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_S88_uid62979/NC_011742.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_S88_uid62979/NC_011747.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_S88_uid62979/NC_011747.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_S88_uid62979/NC_011747.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011407.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011407.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011407.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011408.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011408.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011408.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011411.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011411.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011411.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011413.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011413.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011413.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011415.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011415.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011415.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011416.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011416.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011416.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011419.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011419.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE11_uid59425/NC_011419.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE15_uid161939/NC_013654.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE15_uid161939/NC_013654.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE15_uid161939/NC_013654.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE15_uid161939/NC_013655.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE15_uid161939/NC_013655.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SE15_uid161939/NC_013655.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010485.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010485.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010485.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010486.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010486.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010486.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010487.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010487.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010487.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010488.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010488.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010488.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010498.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010498.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_SMS_3_5_uid58919/NC_010498.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UM146_uid162043/NC_017630.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UM146_uid162043/NC_017630.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UM146_uid162043/NC_017630.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UM146_uid162043/NC_017632.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UM146_uid162043/NC_017632.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UM146_uid162043/NC_017632.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMN026_uid62981/NC_011739.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMN026_uid62981/NC_011739.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMN026_uid62981/NC_011739.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMN026_uid62981/NC_011749.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMN026_uid62981/NC_011749.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMN026_uid62981/NC_011749.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMN026_uid62981/NC_011751.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMN026_uid62981/NC_011751.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMN026_uid62981/NC_011751.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017639.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017639.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017639.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017640.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017640.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017640.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017641.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017641.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017641.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017642.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017642.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017642.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017643.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017643.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017643.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017645.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017645.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UMNK88_uid161991/NC_017645.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UTI89_uid58541/NC_007941.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UTI89_uid58541/NC_007941.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UTI89_uid58541/NC_007941.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UTI89_uid58541/NC_007946.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UTI89_uid58541/NC_007946.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_UTI89_uid58541/NC_007946.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162011/NC_017635.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162011/NC_017635.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162011/NC_017635.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162011/NC_017636.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162011/NC_017636.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162011/NC_017636.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162011/NC_017637.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162011/NC_017637.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162011/NC_017637.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162101/NC_017662.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162101/NC_017662.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162101/NC_017662.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162101/NC_017664.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162101/NC_017664.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162101/NC_017664.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162101/NC_017665.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162101/NC_017665.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_W_uid162101/NC_017665.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_Xuzhou21_uid163995/NC_017903.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_Xuzhou21_uid163995/NC_017903.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_Xuzhou21_uid163995/NC_017903.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_Xuzhou21_uid163995/NC_017906.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_Xuzhou21_uid163995/NC_017906.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_Xuzhou21_uid163995/NC_017906.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_Xuzhou21_uid163995/NC_017907.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_Xuzhou21_uid163995/NC_017907.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli_Xuzhou21_uid163995/NC_017907.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli__BL21_Gold_DE3_pLysS_AG__uid59245/NC_012947.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli__BL21_Gold_DE3_pLysS_AG__uid59245/NC_012947.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli__BL21_Gold_DE3_pLysS_AG__uid59245/NC_012947.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli__clone_D_i14__uid162049/NC_017652.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli__clone_D_i14__uid162049/NC_017652.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli__clone_D_i14__uid162049/NC_017652.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli__clone_D_i2__uid162047/NC_017651.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli__clone_D_i2__uid162047/NC_017651.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_coli__clone_D_i2__uid162047/NC_017651.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_fergusonii_ATCC_35469_uid59375/NC_011740.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_fergusonii_ATCC_35469_uid59375/NC_011740.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_fergusonii_ATCC_35469_uid59375/NC_011740.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_fergusonii_ATCC_35469_uid59375/NC_011743.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_fergusonii_ATCC_35469_uid59375/NC_011743.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Escherichia_fergusonii_ATCC_35469_uid59375/NC_011743.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ethanoligenens_harbinense_YUAN_3_uid46255/NC_014828.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ethanoligenens_harbinense_YUAN_3_uid46255/NC_014828.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ethanoligenens_harbinense_YUAN_3_uid46255/NC_014828.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_cylindroides_T2_87_uid197177/NC_021019.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_cylindroides_T2_87_uid197177/NC_021019.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_cylindroides_T2_87_uid197177/NC_021019.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_eligens_ATCC_27750_uid59171/NC_012778.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_eligens_ATCC_27750_uid59171/NC_012778.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_eligens_ATCC_27750_uid59171/NC_012778.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_eligens_ATCC_27750_uid59171/NC_012780.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_eligens_ATCC_27750_uid59171/NC_012780.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_eligens_ATCC_27750_uid59171/NC_012780.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_eligens_ATCC_27750_uid59171/NC_012782.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_eligens_ATCC_27750_uid59171/NC_012782.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_eligens_ATCC_27750_uid59171/NC_012782.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_limosum_KIST612_uid59777/NC_014624.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_limosum_KIST612_uid59777/NC_014624.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_limosum_KIST612_uid59777/NC_014624.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_rectale_ATCC_33656_uid59169/NC_012781.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_rectale_ATCC_33656_uid59169/NC_012781.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_rectale_ATCC_33656_uid59169/NC_012781.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_rectale_uid197161/NC_021010.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_rectale_uid197161/NC_021010.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_rectale_uid197161/NC_021010.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_rectale_uid197162/NC_021044.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_rectale_uid197162/NC_021044.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_rectale_uid197162/NC_021044.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_siraeum_V10Sc8a_uid197178/NC_021043.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_siraeum_V10Sc8a_uid197178/NC_021043.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_siraeum_V10Sc8a_uid197178/NC_021043.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_siraeum_uid197160/NC_021011.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_siraeum_uid197160/NC_021011.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Eubacterium_siraeum_uid197160/NC_021011.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_AT1b_uid59093/NC_012673.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_AT1b_uid59093/NC_012673.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_AT1b_uid59093/NC_012673.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_MH3_uid227425/NC_022794.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_MH3_uid227425/NC_022794.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_MH3_uid227425/NC_022794.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_antarcticum_B7_uid176125/NC_018665.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_antarcticum_B7_uid176125/NC_018665.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_antarcticum_B7_uid176125/NC_018665.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_sibiricum_255_15_uid58053/NC_010549.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_sibiricum_255_15_uid58053/NC_010549.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_sibiricum_255_15_uid58053/NC_010549.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_sibiricum_255_15_uid58053/NC_010550.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_sibiricum_255_15_uid58053/NC_010550.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_sibiricum_255_15_uid58053/NC_010550.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_sibiricum_255_15_uid58053/NC_010556.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_sibiricum_255_15_uid58053/NC_010556.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Exiguobacterium_sibiricum_255_15_uid58053/NC_010556.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Faecalibacterium_prausnitzii_L2_6_uid197183/NC_021042.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Faecalibacterium_prausnitzii_L2_6_uid197183/NC_021042.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Faecalibacterium_prausnitzii_L2_6_uid197183/NC_021042.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Faecalibacterium_prausnitzii_uid197157/NC_021020.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Faecalibacterium_prausnitzii_uid197157/NC_021020.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Faecalibacterium_prausnitzii_uid197157/NC_021020.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ferrimonas_balearica_DSM_9799_uid53371/NC_014541.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ferrimonas_balearica_DSM_9799_uid53371/NC_014541.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ferrimonas_balearica_DSM_9799_uid53371/NC_014541.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fervidobacterium_nodosum_Rt17_B1_uid58625/NC_009718.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fervidobacterium_nodosum_Rt17_B1_uid58625/NC_009718.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fervidobacterium_nodosum_Rt17_B1_uid58625/NC_009718.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fervidobacterium_pennivorans_DSM_9078_uid78143/NC_017095.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fervidobacterium_pennivorans_DSM_9078_uid78143/NC_017095.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fervidobacterium_pennivorans_DSM_9078_uid78143/NC_017095.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrella_aestuarina_uid178352/NC_019012.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrella_aestuarina_uid178352/NC_019012.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrella_aestuarina_uid178352/NC_019012.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrella_aestuarina_uid178352/NC_020054.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrella_aestuarina_uid178352/NC_020054.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrella_aestuarina_uid178352/NC_020054.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrobacter_succinogenes_S85_uid161919/NC_017448.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrobacter_succinogenes_S85_uid161919/NC_017448.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrobacter_succinogenes_S85_uid161919/NC_017448.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrobacter_succinogenes_S85_uid41169/NC_013410.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrobacter_succinogenes_S85_uid41169/NC_013410.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fibrobacter_succinogenes_S85_uid41169/NC_013410.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Filifactor_alocis_ATCC_35896_uid46625/NC_016630.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Filifactor_alocis_ATCC_35896_uid46625/NC_016630.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Filifactor_alocis_ATCC_35896_uid46625/NC_016630.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Finegoldia_magna_ATCC_29328_uid58867/NC_010371.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Finegoldia_magna_ATCC_29328_uid58867/NC_010371.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Finegoldia_magna_ATCC_29328_uid58867/NC_010371.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Finegoldia_magna_ATCC_29328_uid58867/NC_010376.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Finegoldia_magna_ATCC_29328_uid58867/NC_010376.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Finegoldia_magna_ATCC_29328_uid58867/NC_010376.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacteriaceae_bacterium_3519_10_uid59413/NC_013062.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacteriaceae_bacterium_3519_10_uid59413/NC_013062.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacteriaceae_bacterium_3519_10_uid59413/NC_013062.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacteriales_bacterium_HTCC2170_uid51877/NC_014472.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacteriales_bacterium_HTCC2170_uid51877/NC_014472.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacteriales_bacterium_HTCC2170_uid51877/NC_014472.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_branchiophilum_FL_15_uid73421/NC_016001.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_branchiophilum_FL_15_uid73421/NC_016001.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_branchiophilum_FL_15_uid73421/NC_016001.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_branchiophilum_FL_15_uid73421/NC_018751.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_branchiophilum_FL_15_uid73421/NC_018751.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_branchiophilum_FL_15_uid73421/NC_018751.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_columnare_ATCC_49512_uid80731/NC_016510.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_columnare_ATCC_49512_uid80731/NC_016510.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_columnare_ATCC_49512_uid80731/NC_016510.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_indicum_GPTSA100_9_uid157999/NC_017025.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_indicum_GPTSA100_9_uid157999/NC_017025.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_indicum_GPTSA100_9_uid157999/NC_017025.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_johnsoniae_UW101_uid58493/NC_009441.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_johnsoniae_UW101_uid58493/NC_009441.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_johnsoniae_UW101_uid58493/NC_009441.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_psychrophilum_JIP02_86_uid61627/NC_009613.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_psychrophilum_JIP02_86_uid61627/NC_009613.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flavobacterium_psychrophilum_JIP02_86_uid61627/NC_009613.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flexibacter_litoralis_DSM_6794_uid168257/NC_018018.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flexibacter_litoralis_DSM_6794_uid168257/NC_018018.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flexibacter_litoralis_DSM_6794_uid168257/NC_018018.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flexistipes_sinusarabici_DSM_4947_uid68147/NC_015672.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flexistipes_sinusarabici_DSM_4947_uid68147/NC_015672.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Flexistipes_sinusarabici_DSM_4947_uid68147/NC_015672.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fluviicola_taffensis_DSM_16823_uid65271/NC_015321.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fluviicola_taffensis_DSM_16823_uid65271/NC_015321.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fluviicola_taffensis_DSM_16823_uid65271/NC_015321.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_TX077308_uid68321/NC_015696.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_TX077308_uid68321/NC_015696.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_TX077308_uid68321/NC_015696.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_cf__novicida_3523_uid162107/NC_017449.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_cf__novicida_3523_uid162107/NC_017449.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_cf__novicida_3523_uid162107/NC_017449.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_cf__novicida_Fx1_uid162105/NC_017450.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_cf__novicida_Fx1_uid162105/NC_017450.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_cf__novicida_Fx1_uid162105/NC_017450.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_noatunensis_orientalis_LADL_07_285A_uid231515/NC_023029.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_noatunensis_orientalis_LADL_07_285A_uid231515/NC_023029.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_noatunensis_orientalis_LADL_07_285A_uid231515/NC_023029.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_noatunensis_orientalis_Toba_04_uid164779/NC_017909.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_noatunensis_orientalis_Toba_04_uid164779/NC_017909.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_noatunensis_orientalis_Toba_04_uid164779/NC_017909.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_novicida_U112_uid58499/NC_008601.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_novicida_U112_uid58499/NC_008601.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_novicida_U112_uid58499/NC_008601.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_philomiragia_ATCC_25017_uid59105/NC_010331.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_philomiragia_ATCC_25017_uid59105/NC_010331.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_philomiragia_ATCC_25017_uid59105/NC_010331.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_philomiragia_ATCC_25017_uid59105/NC_010336.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_philomiragia_ATCC_25017_uid59105/NC_010336.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_philomiragia_ATCC_25017_uid59105/NC_010336.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_FSC198_uid58693/NC_008245.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_FSC198_uid58693/NC_008245.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_FSC198_uid58693/NC_008245.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_NE061598_uid161973/NC_017453.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_NE061598_uid161973/NC_017453.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_NE061598_uid161973/NC_017453.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_SCHU_S4_uid57589/NC_006570.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_SCHU_S4_uid57589/NC_006570.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_SCHU_S4_uid57589/NC_006570.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_TI0902_uid89373/NC_016937.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_TI0902_uid89373/NC_016937.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_TI0902_uid89373/NC_016937.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_TIGB03_uid89379/NC_016933.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_TIGB03_uid89379/NC_016933.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_TIGB03_uid89379/NC_016933.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_WY96_3418_uid58811/NC_009257.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_WY96_3418_uid58811/NC_009257.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_WY96_3418_uid58811/NC_009257.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_F92_uid181998/NC_019537.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_F92_uid181998/NC_019537.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_F92_uid181998/NC_019537.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_FSC200_uid54341/NC_019551.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_FSC200_uid54341/NC_019551.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_FSC200_uid54341/NC_019551.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_FTNF002_00_uid58999/NC_009749.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_FTNF002_00_uid58999/NC_009749.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_FTNF002_00_uid58999/NC_009749.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_LVS_uid58595/NC_007880.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_LVS_uid58595/NC_007880.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_LVS_uid58595/NC_007880.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_OSU18_uid58687/NC_008369.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_OSU18_uid58687/NC_008369.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_holarctica_OSU18_uid58687/NC_008369.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_mediasiatica_FSC147_uid58939/NC_010677.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_mediasiatica_FSC147_uid58939/NC_010677.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Francisella_tularensis_mediasiatica_FSC147_uid58939/NC_010677.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_CcI3_uid58397/NC_007777.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_CcI3_uid58397/NC_007777.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_CcI3_uid58397/NC_007777.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_EAN1pec_uid58367/NC_009921.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_EAN1pec_uid58367/NC_009921.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_EAN1pec_uid58367/NC_009921.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_EuI1c_uid42615/NC_014666.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_EuI1c_uid42615/NC_014666.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_EuI1c_uid42615/NC_014666.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_alni_ACN14a_uid58695/NC_008278.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_alni_ACN14a_uid58695/NC_008278.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_alni_ACN14a_uid58695/NC_008278.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_symbiont_of_Datisca_glomerata_uid46257/NC_015656.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_symbiont_of_Datisca_glomerata_uid46257/NC_015656.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_symbiont_of_Datisca_glomerata_uid46257/NC_015656.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_symbiont_of_Datisca_glomerata_uid46257/NC_015657.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_symbiont_of_Datisca_glomerata_uid46257/NC_015657.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_symbiont_of_Datisca_glomerata_uid46257/NC_015657.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_symbiont_of_Datisca_glomerata_uid46257/NC_015664.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_symbiont_of_Datisca_glomerata_uid46257/NC_015664.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frankia_symbiont_of_Datisca_glomerata_uid46257/NC_015664.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frateuria_aurantia_DSM_6220_uid81775/NC_017033.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frateuria_aurantia_DSM_6220_uid81775/NC_017033.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Frateuria_aurantia_DSM_6220_uid81775/NC_017033.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_3_1_36A2_uid55995/NC_022196.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_3_1_36A2_uid55995/NC_022196.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_3_1_36A2_uid55995/NC_022196.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_4_8_uid205051/NC_021277.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_4_8_uid205051/NC_021277.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_4_8_uid205051/NC_021277.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_4_8_uid205051/NC_021281.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_4_8_uid205051/NC_021281.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_4_8_uid205051/NC_021281.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_nucleatum_ATCC_25586_uid57885/NC_003454.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_nucleatum_ATCC_25586_uid57885/NC_003454.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_nucleatum_ATCC_25586_uid57885/NC_003454.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_nucleatum_polymorphum_ATCC_10953_uid54419/NC_009506.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_nucleatum_polymorphum_ATCC_10953_uid54419/NC_009506.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Fusobacterium_nucleatum_polymorphum_ATCC_10953_uid54419/NC_009506.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gallibacterium_anatis_UMN179_uid66567/NC_015460.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gallibacterium_anatis_UMN179_uid66567/NC_015460.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gallibacterium_anatis_UMN179_uid66567/NC_015460.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gallibacterium_anatis_UMN179_uid66567/NC_015461.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gallibacterium_anatis_UMN179_uid66567/NC_015461.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gallibacterium_anatis_UMN179_uid66567/NC_015461.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gallionella_capsiferriformans_ES_2_uid51505/NC_014394.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gallionella_capsiferriformans_ES_2_uid51505/NC_014394.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gallionella_capsiferriformans_ES_2_uid51505/NC_014394.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gardnerella_vaginalis_409_05_uid43211/NC_013721.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gardnerella_vaginalis_409_05_uid43211/NC_013721.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gardnerella_vaginalis_409_05_uid43211/NC_013721.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gardnerella_vaginalis_ATCC_14019_uid55487/NC_014644.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gardnerella_vaginalis_ATCC_14019_uid55487/NC_014644.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gardnerella_vaginalis_ATCC_14019_uid55487/NC_014644.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gardnerella_vaginalis_HMP9231_uid162045/NC_017456.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gardnerella_vaginalis_HMP9231_uid162045/NC_017456.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gardnerella_vaginalis_HMP9231_uid162045/NC_017456.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geitlerinema_PCC_7407_uid183007/NC_019703.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geitlerinema_PCC_7407_uid183007/NC_019703.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geitlerinema_PCC_7407_uid183007/NC_019703.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gemmatimonas_aurantiaca_T_27_uid58813/NC_012489.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gemmatimonas_aurantiaca_T_27_uid58813/NC_012489.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gemmatimonas_aurantiaca_T_27_uid58813/NC_012489.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_C56_T3_uid49467/NC_014206.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_C56_T3_uid49467/NC_014206.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_C56_T3_uid49467/NC_014206.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_HH01_uid188479/NC_020210.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_HH01_uid188479/NC_020210.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_HH01_uid188479/NC_020210.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_JF8_uid215234/NC_022080.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_JF8_uid215234/NC_022080.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_JF8_uid215234/NC_022080.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_JF8_uid215234/NC_022092.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_JF8_uid215234/NC_022092.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_JF8_uid215234/NC_022092.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_WCH70_uid59045/NC_012790.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_WCH70_uid59045/NC_012790.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_WCH70_uid59045/NC_012790.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_WCH70_uid59045/NC_012793.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_WCH70_uid59045/NC_012793.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_WCH70_uid59045/NC_012793.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_WCH70_uid59045/NC_012794.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_WCH70_uid59045/NC_012794.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_WCH70_uid59045/NC_012794.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC52_uid55381/NC_014915.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC52_uid55381/NC_014915.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC52_uid55381/NC_014915.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC52_uid55381/NC_014916.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC52_uid55381/NC_014916.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC52_uid55381/NC_014916.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC61_uid41171/NC_013411.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC61_uid41171/NC_013411.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC61_uid41171/NC_013411.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC61_uid41171/NC_013412.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC61_uid41171/NC_013412.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y412MC61_uid41171/NC_013412.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y4_1MC1_uid55779/NC_014650.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y4_1MC1_uid55779/NC_014650.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y4_1MC1_uid55779/NC_014650.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y4_1MC1_uid55779/NC_014651.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y4_1MC1_uid55779/NC_014651.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_Y4_1MC1_uid55779/NC_014651.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_kaustophilus_HTA426_uid58227/NC_006509.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_kaustophilus_HTA426_uid58227/NC_006509.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_kaustophilus_HTA426_uid58227/NC_006509.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_kaustophilus_HTA426_uid58227/NC_006510.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_kaustophilus_HTA426_uid58227/NC_006510.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_kaustophilus_HTA426_uid58227/NC_006510.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermodenitrificans_NG80_2_uid58829/NC_009328.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermodenitrificans_NG80_2_uid58829/NC_009328.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermodenitrificans_NG80_2_uid58829/NC_009328.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermodenitrificans_NG80_2_uid58829/NC_009329.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermodenitrificans_NG80_2_uid58829/NC_009329.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermodenitrificans_NG80_2_uid58829/NC_009329.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoglucosidasius_C56_YS93_uid48129/NC_015660.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoglucosidasius_C56_YS93_uid48129/NC_015660.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoglucosidasius_C56_YS93_uid48129/NC_015660.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoglucosidasius_C56_YS93_uid48129/NC_015661.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoglucosidasius_C56_YS93_uid48129/NC_015661.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoglucosidasius_C56_YS93_uid48129/NC_015661.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoglucosidasius_C56_YS93_uid48129/NC_015665.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoglucosidasius_C56_YS93_uid48129/NC_015665.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoglucosidasius_C56_YS93_uid48129/NC_015665.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoleovorans_CCB_US3_UF5_uid82949/NC_016593.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoleovorans_CCB_US3_UF5_uid82949/NC_016593.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacillus_thermoleovorans_CCB_US3_UF5_uid82949/NC_016593.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_FRC_32_uid58543/NC_011979.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_FRC_32_uid58543/NC_011979.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_FRC_32_uid58543/NC_011979.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_M18_uid55771/NC_014973.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_M18_uid55771/NC_014973.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_M18_uid55771/NC_014973.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_M21_uid59037/NC_012918.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_M21_uid59037/NC_012918.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_M21_uid59037/NC_012918.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_bemidjiensis_Bem_uid58749/NC_011146.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_bemidjiensis_Bem_uid58749/NC_011146.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_bemidjiensis_Bem_uid58749/NC_011146.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_lovleyi_SZ_uid58713/NC_010814.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_lovleyi_SZ_uid58713/NC_010814.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_lovleyi_SZ_uid58713/NC_010814.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_lovleyi_SZ_uid58713/NC_010815.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_lovleyi_SZ_uid58713/NC_010815.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_lovleyi_SZ_uid58713/NC_010815.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_metallireducens_GS_15_uid57731/NC_007515.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_metallireducens_GS_15_uid57731/NC_007515.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_metallireducens_GS_15_uid57731/NC_007515.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_metallireducens_GS_15_uid57731/NC_007517.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_metallireducens_GS_15_uid57731/NC_007517.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_metallireducens_GS_15_uid57731/NC_007517.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_sulfurreducens_KN400_uid161977/NC_017454.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_sulfurreducens_KN400_uid161977/NC_017454.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_sulfurreducens_KN400_uid161977/NC_017454.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_sulfurreducens_PCA_uid57743/NC_002939.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_sulfurreducens_PCA_uid57743/NC_002939.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_sulfurreducens_PCA_uid57743/NC_002939.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_uraniireducens_Rf4_uid58475/NC_009483.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_uraniireducens_Rf4_uid58475/NC_009483.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geobacter_uraniireducens_Rf4_uid58475/NC_009483.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geodermatophilus_obscurus_DSM_43160_uid43725/NC_013757.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geodermatophilus_obscurus_DSM_43160_uid43725/NC_013757.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Geodermatophilus_obscurus_DSM_43160_uid43725/NC_013757.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_4H_3_7_YE_5_uid66595/NC_015497.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_4H_3_7_YE_5_uid66595/NC_015497.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_4H_3_7_YE_5_uid66595/NC_015497.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_4H_3_7_YE_5_uid66595/NC_015498.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_4H_3_7_YE_5_uid66595/NC_015498.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_4H_3_7_YE_5_uid66595/NC_015498.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_nitratireducens_FR1064_uid73759/NC_016041.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_nitratireducens_FR1064_uid73759/NC_016041.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_nitratireducens_FR1064_uid73759/NC_016041.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_psychrophila_170_uid193711/NC_020514.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_psychrophila_170_uid193711/NC_020514.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Glaciecola_psychrophila_170_uid193711/NC_020514.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeobacter_JS_uid225602/NC_022600.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeobacter_JS_uid225602/NC_022600.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeobacter_JS_uid225602/NC_022600.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeobacter_violaceus_PCC_7421_uid58011/NC_005125.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeobacter_violaceus_PCC_7421_uid58011/NC_005125.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeobacter_violaceus_PCC_7421_uid58011/NC_005125.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019745.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019745.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019745.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019746.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019746.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019746.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019747.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019747.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019747.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019759.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019759.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_019759.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_020051.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_020051.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gloeocapsa_PCC_7428_uid183112/NC_020051.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid59075/NC_011365.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid59075/NC_011365.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid59075/NC_011365.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid59075/NC_011367.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid59075/NC_011367.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid59075/NC_011367.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid61587/NC_010123.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid61587/NC_010123.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid61587/NC_010123.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid61587/NC_010124.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid61587/NC_010124.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid61587/NC_010124.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid61587/NC_010125.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid61587/NC_010125.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_diazotrophicus_PAl_5_uid61587/NC_010125.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016021.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016021.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016021.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016022.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016022.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016022.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016027.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016027.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016027.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016028.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016028.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016028.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016029.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016029.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016029.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016030.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016030.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016030.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016037.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016037.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016037.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016900.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016900.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconacetobacter_xylinus_NBRC_3288_uid46523/NC_016900.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006672.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006672.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006672.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006673.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006673.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006673.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006674.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006674.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006674.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006675.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006675.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006675.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006676.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006676.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006676.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006677.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006677.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_621H_uid58239/NC_006677.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_H24_uid179202/NC_019396.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_H24_uid179202/NC_019396.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_H24_uid179202/NC_019396.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_H24_uid179202/NC_019397.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_H24_uid179202/NC_019397.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gluconobacter_oxydans_H24_uid179202/NC_019397.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018580.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018580.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018580.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018581.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018581.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018581.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018582.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018582.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018582.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018583.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018583.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_KTR9_uid174812/NC_018583.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_bronchialis_DSM_43247_uid41403/NC_013441.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_bronchialis_DSM_43247_uid41403/NC_013441.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_bronchialis_DSM_43247_uid41403/NC_013441.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_bronchialis_DSM_43247_uid41403/NC_013442.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_bronchialis_DSM_43247_uid41403/NC_013442.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_bronchialis_DSM_43247_uid41403/NC_013442.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_polyisoprenivorans_VH2_uid86651/NC_016906.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_polyisoprenivorans_VH2_uid86651/NC_016906.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_polyisoprenivorans_VH2_uid86651/NC_016906.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_polyisoprenivorans_VH2_uid86651/NC_016907.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_polyisoprenivorans_VH2_uid86651/NC_016907.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonia_polyisoprenivorans_VH2_uid86651/NC_016907.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonibacter_pamelaeae_7_10_1_b_uid197167/NC_021021.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonibacter_pamelaeae_7_10_1_b_uid197167/NC_021021.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gordonibacter_pamelaeae_7_10_1_b_uid197167/NC_021021.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gramella_forsetii_KT0803_uid58881/NC_008571.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gramella_forsetii_KT0803_uid58881/NC_008571.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Gramella_forsetii_KT0803_uid58881/NC_008571.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Granulibacter_bethesdensis_CGDNIH1_uid58661/NC_008343.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Granulibacter_bethesdensis_CGDNIH1_uid58661/NC_008343.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Granulibacter_bethesdensis_CGDNIH1_uid58661/NC_008343.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Granulicella_mallensis_MP5ACTX8_uid49957/NC_016631.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Granulicella_mallensis_MP5ACTX8_uid49957/NC_016631.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Granulicella_mallensis_MP5ACTX8_uid49957/NC_016631.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_ducreyi_35000HP_uid57625/NC_002940.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_ducreyi_35000HP_uid57625/NC_002940.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_ducreyi_35000HP_uid57625/NC_002940.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_10810_uid86647/NC_016809.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_10810_uid86647/NC_016809.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_10810_uid86647/NC_016809.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_86_028NP_uid58093/NC_007146.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_86_028NP_uid58093/NC_007146.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_86_028NP_uid58093/NC_007146.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_F3031_uid62123/NC_014920.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_F3031_uid62123/NC_014920.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_F3031_uid62123/NC_014920.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_F3047_uid62097/NC_014922.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_F3047_uid62097/NC_014922.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_F3047_uid62097/NC_014922.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_KR494_uid219323/NC_022356.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_KR494_uid219323/NC_022356.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_KR494_uid219323/NC_022356.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_PittEE_uid58591/NC_009566.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_PittEE_uid58591/NC_009566.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_PittEE_uid58591/NC_009566.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_PittGG_uid58593/NC_009567.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_PittGG_uid58593/NC_009567.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_PittGG_uid58593/NC_009567.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_R2846_uid161921/NC_017452.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_R2846_uid161921/NC_017452.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_R2846_uid161921/NC_017452.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_R2866_uid161923/NC_017451.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_R2866_uid161923/NC_017451.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_R2866_uid161923/NC_017451.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_Rd_KW20_uid57771/NC_000907.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_Rd_KW20_uid57771/NC_000907.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_influenzae_Rd_KW20_uid57771/NC_000907.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_parainfluenzae_T3T1_uid72801/NC_015964.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_parainfluenzae_T3T1_uid72801/NC_015964.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_parainfluenzae_T3T1_uid72801/NC_015964.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_parasuis_SH0165_uid59273/NC_011852.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_parasuis_SH0165_uid59273/NC_011852.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_parasuis_SH0165_uid59273/NC_011852.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_parasuis_ZJ0906_uid209117/NC_021521.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_parasuis_ZJ0906_uid209117/NC_021521.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_parasuis_ZJ0906_uid209117/NC_021521.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_somnus_129PT_uid57929/NC_006298.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_somnus_129PT_uid57929/NC_006298.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_somnus_129PT_uid57929/NC_006298.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_somnus_129PT_uid57929/NC_008309.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_somnus_129PT_uid57929/NC_008309.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_somnus_129PT_uid57929/NC_008309.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_somnus_2336_uid57979/NC_010519.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_somnus_2336_uid57979/NC_010519.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haemophilus_somnus_2336_uid57979/NC_010519.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hahella_chejuensis_KCTC_2396_uid58483/NC_007645.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hahella_chejuensis_KCTC_2396_uid58483/NC_007645.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hahella_chejuensis_KCTC_2396_uid58483/NC_007645.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halanaerobium_hydrogeniformans_uid60191/NC_014654.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halanaerobium_hydrogeniformans_uid60191/NC_014654.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halanaerobium_hydrogeniformans_uid60191/NC_014654.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halanaerobium_praevalens_DSM_2228_uid161959/NC_017455.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halanaerobium_praevalens_DSM_2228_uid161959/NC_017455.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halanaerobium_praevalens_DSM_2228_uid161959/NC_017455.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliangium_ochraceum_DSM_14365_uid41425/NC_013440.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliangium_ochraceum_DSM_14365_uid41425/NC_013440.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliangium_ochraceum_DSM_14365_uid41425/NC_013440.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015510.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015510.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015510.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Haliscomenobacter_hydrossis_DSM_1100_uid66777/NC_015513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacillus_halophilus_DSM_2266_uid162033/NC_017668.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacillus_halophilus_DSM_2266_uid162033/NC_017668.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacillus_halophilus_DSM_2266_uid162033/NC_017668.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacillus_halophilus_DSM_2266_uid162033/NC_017669.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacillus_halophilus_DSM_2266_uid162033/NC_017669.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacillus_halophilus_DSM_2266_uid162033/NC_017669.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacillus_halophilus_DSM_2266_uid162033/NC_017670.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacillus_halophilus_DSM_2266_uid162033/NC_017670.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacillus_halophilus_DSM_2266_uid162033/NC_017670.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacterium_NRC_1_uid57769/NC_001869.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacterium_NRC_1_uid57769/NC_001869.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacterium_NRC_1_uid57769/NC_001869.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacterium_NRC_1_uid57769/NC_002607.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacterium_NRC_1_uid57769/NC_002607.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacterium_NRC_1_uid57769/NC_002607.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacterium_NRC_1_uid57769/NC_002608.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacterium_NRC_1_uid57769/NC_002608.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacterium_NRC_1_uid57769/NC_002608.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacteroides_halobius_DSM_5150_uid184862/NC_019978.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacteroides_halobius_DSM_5150_uid184862/NC_019978.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halobacteroides_halobius_DSM_5150_uid184862/NC_019978.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halomonas_elongata_DSM_2581_uid52781/NC_014532.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halomonas_elongata_DSM_2581_uid52781/NC_014532.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halomonas_elongata_DSM_2581_uid52781/NC_014532.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halorhodospira_halophila_SL1_uid58473/NC_008789.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halorhodospira_halophila_SL1_uid58473/NC_008789.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halorhodospira_halophila_SL1_uid58473/NC_008789.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halothece_PCC_7418_uid183338/NC_019779.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halothece_PCC_7418_uid183338/NC_019779.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halothece_PCC_7418_uid183338/NC_019779.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halothermothrix_orenii_H_168_uid58585/NC_011899.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halothermothrix_orenii_H_168_uid58585/NC_011899.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halothermothrix_orenii_H_168_uid58585/NC_011899.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halothiobacillus_neapolitanus_c2_uid41317/NC_013422.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halothiobacillus_neapolitanus_c2_uid41317/NC_013422.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halothiobacillus_neapolitanus_c2_uid41317/NC_013422.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halyomorpha_halys_symbiont_uid222821/NC_022547.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halyomorpha_halys_symbiont_uid222821/NC_022547.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Halyomorpha_halys_symbiont_uid222821/NC_022547.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_acinonychis_Sheeba_uid58685/NC_008229.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_acinonychis_Sheeba_uid58685/NC_008229.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_acinonychis_Sheeba_uid58685/NC_008229.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_acinonychis_Sheeba_uid58685/NC_008230.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_acinonychis_Sheeba_uid58685/NC_008230.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_acinonychis_Sheeba_uid58685/NC_008230.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_bizzozeronii_CIII_1_uid68141/NC_015670.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_bizzozeronii_CIII_1_uid68141/NC_015670.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_bizzozeronii_CIII_1_uid68141/NC_015670.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_bizzozeronii_CIII_1_uid68141/NC_015674.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_bizzozeronii_CIII_1_uid68141/NC_015674.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_bizzozeronii_CIII_1_uid68141/NC_015674.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_00_7128_uid162217/NC_017737.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_00_7128_uid162217/NC_017737.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_00_7128_uid162217/NC_017737.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_00_7128_uid162217/NC_017738.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_00_7128_uid162217/NC_017738.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_00_7128_uid162217/NC_017738.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_99_5656_uid162215/NC_017735.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_99_5656_uid162215/NC_017735.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_99_5656_uid162215/NC_017735.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_99_5656_uid162215/NC_017736.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_99_5656_uid162215/NC_017736.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cetorum_MIT_99_5656_uid162215/NC_017736.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cinaedi_ATCC_BAA_847_uid193765/NC_020555.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cinaedi_ATCC_BAA_847_uid193765/NC_020555.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cinaedi_ATCC_BAA_847_uid193765/NC_020555.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cinaedi_PAGU611_uid162219/NC_017761.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cinaedi_PAGU611_uid162219/NC_017761.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cinaedi_PAGU611_uid162219/NC_017761.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cinaedi_PAGU611_uid162219/NC_017762.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cinaedi_PAGU611_uid162219/NC_017762.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_cinaedi_PAGU611_uid162219/NC_017762.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_felis_ATCC_49179_uid61409/NC_014810.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_felis_ATCC_49179_uid61409/NC_014810.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_felis_ATCC_49179_uid61409/NC_014810.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_heilmannii_ASB1_4_uid182935/NC_019674.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_heilmannii_ASB1_4_uid182935/NC_019674.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_heilmannii_ASB1_4_uid182935/NC_019674.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_hepaticus_ATCC_51449_uid57737/NC_004917.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_hepaticus_ATCC_51449_uid57737/NC_004917.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_hepaticus_ATCC_51449_uid57737/NC_004917.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_mustelae_12198_uid46647/NC_013949.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_mustelae_12198_uid46647/NC_013949.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_mustelae_12198_uid46647/NC_013949.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_2017_uid161151/NC_017374.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_2017_uid161151/NC_017374.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_2017_uid161151/NC_017374.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_2018_uid161159/NC_017381.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_2018_uid161159/NC_017381.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_2018_uid161159/NC_017381.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_26695_uid178201/NC_018939.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_26695_uid178201/NC_018939.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_26695_uid178201/NC_018939.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_26695_uid57787/NC_000915.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_26695_uid57787/NC_000915.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_26695_uid57787/NC_000915.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_35A_uid49903/NC_017360.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_35A_uid49903/NC_017360.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_35A_uid49903/NC_017360.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_51_uid161925/NC_017382.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_51_uid161925/NC_017382.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_51_uid161925/NC_017382.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_83_uid161153/NC_017375.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_83_uid161153/NC_017375.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_83_uid161153/NC_017375.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_908_uid159985/NC_017357.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_908_uid159985/NC_017357.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_908_uid159985/NC_017357.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik117_uid182201/NC_019560.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik117_uid182201/NC_019560.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik117_uid182201/NC_019560.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik117_uid182201/NC_019561.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik117_uid182201/NC_019561.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik117_uid182201/NC_019561.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik117_uid182201/NC_019562.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik117_uid182201/NC_019562.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik117_uid182201/NC_019562.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik86_uid182202/NC_019563.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik86_uid182202/NC_019563.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik86_uid182202/NC_019563.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik86_uid182202/NC_019564.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik86_uid182202/NC_019564.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik86_uid182202/NC_019564.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik86_uid182202/NC_019565.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik86_uid182202/NC_019565.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Aklavik86_uid182202/NC_019565.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_B38_uid59415/NC_012973.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_B38_uid59415/NC_012973.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_B38_uid59415/NC_012973.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_B8_uid49873/NC_014256.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_B8_uid49873/NC_014256.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_B8_uid49873/NC_014256.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_B8_uid49873/NC_014257.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_B8_uid49873/NC_014257.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_B8_uid49873/NC_014257.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_BM012A_uid229744/NC_022886.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_BM012A_uid229744/NC_022886.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_BM012A_uid229744/NC_022886.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_BM012S_uid229881/NC_022911.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_BM012S_uid229881/NC_022911.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_BM012S_uid229881/NC_022911.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Cuz20_uid159987/NC_017358.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Cuz20_uid159987/NC_017358.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Cuz20_uid159987/NC_017358.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_ELS37_uid158157/NC_017063.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_ELS37_uid158157/NC_017063.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_ELS37_uid158157/NC_017063.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_ELS37_uid158157/NC_017064.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_ELS37_uid158157/NC_017064.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_ELS37_uid158157/NC_017064.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F16_uid161145/NC_017368.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F16_uid161145/NC_017368.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F16_uid161145/NC_017368.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F30_uid159991/NC_017365.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F30_uid159991/NC_017365.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F30_uid159991/NC_017365.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F30_uid159991/NC_017369.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F30_uid159991/NC_017369.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F30_uid159991/NC_017369.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F32_uid161139/NC_017366.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F32_uid161139/NC_017366.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F32_uid161139/NC_017366.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F32_uid161139/NC_017370.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F32_uid161139/NC_017370.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F32_uid161139/NC_017370.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F57_uid161143/NC_017367.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F57_uid161143/NC_017367.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_F57_uid161143/NC_017367.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_G27_uid59305/NC_011333.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_G27_uid59305/NC_011333.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_G27_uid59305/NC_011333.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_G27_uid59305/NC_011334.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_G27_uid59305/NC_011334.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_G27_uid59305/NC_011334.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Gambia94_24_uid159493/NC_017364.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Gambia94_24_uid159493/NC_017364.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Gambia94_24_uid159493/NC_017364.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Gambia94_24_uid159493/NC_017371.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Gambia94_24_uid159493/NC_017371.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Gambia94_24_uid159493/NC_017371.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HPAG1_uid58517/NC_008086.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HPAG1_uid58517/NC_008086.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HPAG1_uid58517/NC_008086.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HPAG1_uid58517/NC_008087.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HPAG1_uid58517/NC_008087.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HPAG1_uid58517/NC_008087.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HUP_B14_uid162213/NC_017733.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HUP_B14_uid162213/NC_017733.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HUP_B14_uid162213/NC_017733.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HUP_B14_uid162213/NC_017734.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HUP_B14_uid162213/NC_017734.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_HUP_B14_uid162213/NC_017734.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_India7_uid161149/NC_017372.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_India7_uid161149/NC_017372.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_India7_uid161149/NC_017372.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_J99_uid57789/NC_000921.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_J99_uid57789/NC_000921.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_J99_uid57789/NC_000921.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Lithuania75_uid159491/NC_017362.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Lithuania75_uid159491/NC_017362.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Lithuania75_uid159491/NC_017362.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Lithuania75_uid159491/NC_017363.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Lithuania75_uid159491/NC_017363.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Lithuania75_uid159491/NC_017363.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_OK113_uid193715/NC_020508.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_OK113_uid193715/NC_020508.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_OK113_uid193715/NC_020508.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_OK310_uid193716/NC_020509.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_OK310_uid193716/NC_020509.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_OK310_uid193716/NC_020509.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_OK310_uid193716/NC_020556.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_OK310_uid193716/NC_020556.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_OK310_uid193716/NC_020556.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_P12_uid59327/NC_011498.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_P12_uid59327/NC_011498.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_P12_uid59327/NC_011498.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_P12_uid59327/NC_011499.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_P12_uid59327/NC_011499.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_P12_uid59327/NC_011499.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_PeCan18_uid162211/NC_017742.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_PeCan18_uid162211/NC_017742.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_PeCan18_uid162211/NC_017742.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_PeCan4_uid53539/NC_014555.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_PeCan4_uid53539/NC_014555.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_PeCan4_uid53539/NC_014555.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_PeCan4_uid53539/NC_014556.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_PeCan4_uid53539/NC_014556.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_PeCan4_uid53539/NC_014556.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Puno120_uid159611/NC_017377.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Puno120_uid159611/NC_017377.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Puno120_uid159611/NC_017377.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Puno120_uid159611/NC_017378.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Puno120_uid159611/NC_017378.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Puno120_uid159611/NC_017378.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Puno135_uid161157/NC_017379.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Puno135_uid161157/NC_017379.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Puno135_uid161157/NC_017379.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Rif1_uid178202/NC_018937.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Rif1_uid178202/NC_018937.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Rif1_uid178202/NC_018937.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Rif2_uid178203/NC_018938.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Rif2_uid178203/NC_018938.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Rif2_uid178203/NC_018938.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SJM180_uid53541/NC_014560.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SJM180_uid53541/NC_014560.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SJM180_uid53541/NC_014560.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SNT49_uid159615/NC_017376.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SNT49_uid159615/NC_017376.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SNT49_uid159615/NC_017376.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SNT49_uid159615/NC_017380.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SNT49_uid159615/NC_017380.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SNT49_uid159615/NC_017380.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Sat464_uid159467/NC_017356.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Sat464_uid159467/NC_017356.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Sat464_uid159467/NC_017356.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Sat464_uid159467/NC_017359.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Sat464_uid159467/NC_017359.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Sat464_uid159467/NC_017359.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi112_uid162207/NC_017741.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi112_uid162207/NC_017741.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi112_uid162207/NC_017741.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi169_uid162209/NC_017740.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi169_uid162209/NC_017740.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi169_uid162209/NC_017740.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi417_uid162205/NC_017739.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi417_uid162205/NC_017739.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi417_uid162205/NC_017739.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi470_uid59165/NC_010698.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi470_uid59165/NC_010698.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_Shi470_uid59165/NC_010698.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SouthAfrica20_uid216150/NC_022130.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SouthAfrica20_uid216150/NC_022130.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SouthAfrica20_uid216150/NC_022130.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SouthAfrica7_uid159989/NC_017361.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SouthAfrica7_uid159989/NC_017361.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SouthAfrica7_uid159989/NC_017361.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SouthAfrica7_uid159989/NC_017373.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SouthAfrica7_uid159989/NC_017373.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_SouthAfrica7_uid159989/NC_017373.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM032_uid203025/NC_021215.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM032_uid203025/NC_021215.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM032_uid203025/NC_021215.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM037_uid203027/NC_021217.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM037_uid203027/NC_021217.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM037_uid203027/NC_021217.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM066_uid203028/NC_021218.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM066_uid203028/NC_021218.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM066_uid203028/NC_021218.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM298_uid213226/NC_021882.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM298_uid213226/NC_021882.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM298_uid213226/NC_021882.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM299_uid203026/NC_021216.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM299_uid203026/NC_021216.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_UM299_uid203026/NC_021216.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_XZ274_uid165869/NC_017919.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_XZ274_uid165869/NC_017919.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_XZ274_uid165869/NC_017919.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_XZ274_uid165869/NC_017926.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_XZ274_uid165869/NC_017926.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_XZ274_uid165869/NC_017926.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_uid159983/NC_017354.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_uid159983/NC_017354.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_uid159983/NC_017354.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_v225d_uid159639/NC_017355.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_v225d_uid159639/NC_017355.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_v225d_uid159639/NC_017355.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_v225d_uid159639/NC_017383.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_v225d_uid159639/NC_017383.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Helicobacter_pylori_v225d_uid159639/NC_017383.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Heliobacterium_modesticaldum_Ice1_uid58279/NC_010337.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Heliobacterium_modesticaldum_Ice1_uid58279/NC_010337.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Heliobacterium_modesticaldum_Ice1_uid58279/NC_010337.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herbaspirillum_seropedicae_SmR1_uid50427/NC_014323.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herbaspirillum_seropedicae_SmR1_uid50427/NC_014323.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herbaspirillum_seropedicae_SmR1_uid50427/NC_014323.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herminiimonas_arsenicoxydans_uid58291/NC_009138.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herminiimonas_arsenicoxydans_uid58291/NC_009138.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herminiimonas_arsenicoxydans_uid58291/NC_009138.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herpetosiphon_aurantiacus_DSM_785_uid58599/NC_009972.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herpetosiphon_aurantiacus_DSM_785_uid58599/NC_009972.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herpetosiphon_aurantiacus_DSM_785_uid58599/NC_009972.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herpetosiphon_aurantiacus_DSM_785_uid58599/NC_009973.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herpetosiphon_aurantiacus_DSM_785_uid58599/NC_009973.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herpetosiphon_aurantiacus_DSM_785_uid58599/NC_009973.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herpetosiphon_aurantiacus_DSM_785_uid58599/NC_009974.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herpetosiphon_aurantiacus_DSM_785_uid58599/NC_009974.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Herpetosiphon_aurantiacus_DSM_785_uid58599/NC_009974.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hippea_maritima_DSM_10411_uid65267/NC_015318.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hippea_maritima_DSM_10411_uid65267/NC_015318.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hippea_maritima_DSM_10411_uid65267/NC_015318.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hirschia_baltica_ATCC_49814_uid59365/NC_012982.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hirschia_baltica_ATCC_49814_uid59365/NC_012982.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hirschia_baltica_ATCC_49814_uid59365/NC_012982.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hirschia_baltica_ATCC_49814_uid59365/NC_012983.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hirschia_baltica_ATCC_49814_uid59365/NC_012983.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hirschia_baltica_ATCC_49814_uid59365/NC_012983.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_MC1_uid68453/NC_015717.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_MC1_uid68453/NC_015717.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_MC1_uid68453/NC_015717.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_denitrificans_1NES1_uid179904/NC_021172.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_denitrificans_1NES1_uid179904/NC_021172.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_denitrificans_1NES1_uid179904/NC_021172.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_denitrificans_ATCC_51888_uid50325/NC_014313.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_denitrificans_ATCC_51888_uid50325/NC_014313.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_denitrificans_ATCC_51888_uid50325/NC_014313.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_nitrativorans_NL23_uid230615/NC_022997.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_nitrativorans_NL23_uid230615/NC_022997.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomicrobium_nitrativorans_NL23_uid230615/NC_022997.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomonas_neptunium_ATCC_15444_uid58433/NC_008358.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomonas_neptunium_ATCC_15444_uid58433/NC_008358.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Hyphomonas_neptunium_ATCC_15444_uid58433/NC_008358.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Idiomarina_loihiensis_GSL_199_uid205256/NC_021286.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Idiomarina_loihiensis_GSL_199_uid205256/NC_021286.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Idiomarina_loihiensis_GSL_199_uid205256/NC_021286.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Idiomarina_loihiensis_L2TR_uid58087/NC_006512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Idiomarina_loihiensis_L2TR_uid58087/NC_006512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Idiomarina_loihiensis_L2TR_uid58087/NC_006512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ignavibacterium_album_JCM_16511_uid162097/NC_017464.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ignavibacterium_album_JCM_16511_uid162097/NC_017464.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ignavibacterium_album_JCM_16511_uid162097/NC_017464.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ilyobacter_polytropus_DSM_2926_uid59769/NC_014632.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ilyobacter_polytropus_DSM_2926_uid59769/NC_014632.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ilyobacter_polytropus_DSM_2926_uid59769/NC_014632.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ilyobacter_polytropus_DSM_2926_uid59769/NC_014633.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ilyobacter_polytropus_DSM_2926_uid59769/NC_014633.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ilyobacter_polytropus_DSM_2926_uid59769/NC_014633.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ilyobacter_polytropus_DSM_2926_uid59769/NC_014634.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ilyobacter_polytropus_DSM_2926_uid59769/NC_014634.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ilyobacter_polytropus_DSM_2926_uid59769/NC_014634.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Intrasporangium_calvum_DSM_43043_uid61729/NC_014830.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Intrasporangium_calvum_DSM_43043_uid61729/NC_014830.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Intrasporangium_calvum_DSM_43043_uid61729/NC_014830.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Isoptericola_variabilis_225_uid67501/NC_015588.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Isoptericola_variabilis_225_uid67501/NC_015588.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Isoptericola_variabilis_225_uid67501/NC_015588.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Isosphaera_pallida_ATCC_43644_uid62207/NC_014957.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Isosphaera_pallida_ATCC_43644_uid62207/NC_014957.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Isosphaera_pallida_ATCC_43644_uid62207/NC_014957.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Isosphaera_pallida_ATCC_43644_uid62207/NC_014962.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Isosphaera_pallida_ATCC_43644_uid62207/NC_014962.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Isosphaera_pallida_ATCC_43644_uid62207/NC_014962.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Jannaschia_CCS1_uid58147/NC_007801.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Jannaschia_CCS1_uid58147/NC_007801.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Jannaschia_CCS1_uid58147/NC_007801.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Jannaschia_CCS1_uid58147/NC_007802.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Jannaschia_CCS1_uid58147/NC_007802.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Jannaschia_CCS1_uid58147/NC_007802.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Janthinobacterium_Marseille_uid58603/NC_009659.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Janthinobacterium_Marseille_uid58603/NC_009659.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Janthinobacterium_Marseille_uid58603/NC_009659.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Jonesia_denitrificans_DSM_20603_uid59053/NC_013174.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Jonesia_denitrificans_DSM_20603_uid59053/NC_013174.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Jonesia_denitrificans_DSM_20603_uid59053/NC_013174.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kangiella_koreensis_DSM_16069_uid59209/NC_013166.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kangiella_koreensis_DSM_16069_uid59209/NC_013166.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kangiella_koreensis_DSM_16069_uid59209/NC_013166.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_WSH_001_uid161161/NC_017384.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_WSH_001_uid161161/NC_017384.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_WSH_001_uid161161/NC_017384.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_WSH_001_uid161161/NC_017385.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_WSH_001_uid161161/NC_017385.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_WSH_001_uid161161/NC_017385.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_WSH_001_uid161161/NC_017386.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_WSH_001_uid161161/NC_017386.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_WSH_001_uid161161/NC_017386.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_Y25_uid59581/NC_014621.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_Y25_uid59581/NC_014621.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_Y25_uid59581/NC_014621.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_Y25_uid59581/NC_014625.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_Y25_uid59581/NC_014625.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_Y25_uid59581/NC_014625.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_Y25_uid59581/NC_014626.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_Y25_uid59581/NC_014626.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ketogulonicigenium_vulgare_Y25_uid59581/NC_014626.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kineococcus_radiotolerans_SRS30216_uid58067/NC_009660.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kineococcus_radiotolerans_SRS30216_uid58067/NC_009660.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kineococcus_radiotolerans_SRS30216_uid58067/NC_009660.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kineococcus_radiotolerans_SRS30216_uid58067/NC_009664.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kineococcus_radiotolerans_SRS30216_uid58067/NC_009664.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kineococcus_radiotolerans_SRS30216_uid58067/NC_009664.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kineococcus_radiotolerans_SRS30216_uid58067/NC_009806.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kineococcus_radiotolerans_SRS30216_uid58067/NC_009806.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kineococcus_radiotolerans_SRS30216_uid58067/NC_009806.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kitasatospora_setae_KM_6054_uid77027/NC_016109.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kitasatospora_setae_KM_6054_uid77027/NC_016109.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kitasatospora_setae_KM_6054_uid77027/NC_016109.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_E718_uid170256/NC_018106.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_E718_uid170256/NC_018106.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_E718_uid170256/NC_018106.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_E718_uid170256/NC_018107.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_E718_uid170256/NC_018107.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_E718_uid170256/NC_018107.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_E718_uid170256/NC_021501.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_E718_uid170256/NC_021501.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_E718_uid170256/NC_021501.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_KCTC_1686_uid83159/NC_016612.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_KCTC_1686_uid83159/NC_016612.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_oxytoca_KCTC_1686_uid83159/NC_016612.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_1084_uid174151/NC_018522.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_1084_uid174151/NC_018522.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_1084_uid174151/NC_018522.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_342_uid59145/NC_011281.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_342_uid59145/NC_011281.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_342_uid59145/NC_011281.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_342_uid59145/NC_011282.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_342_uid59145/NC_011282.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_342_uid59145/NC_011282.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_342_uid59145/NC_011283.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_342_uid59145/NC_011283.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_342_uid59145/NC_011283.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_CG43_uid223021/NC_022566.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_CG43_uid223021/NC_022566.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_CG43_uid223021/NC_022566.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016838.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016838.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016838.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016839.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016839.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016839.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016840.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016840.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016840.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016841.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016841.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016841.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016845.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016845.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016845.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016846.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016846.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016846.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016847.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016847.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_HS11286_uid84387/NC_016847.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_JM45_uid215235/NC_022078.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_JM45_uid215235/NC_022078.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_JM45_uid215235/NC_022078.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_JM45_uid215235/NC_022082.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_JM45_uid215235/NC_022082.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_JM45_uid215235/NC_022082.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_JM45_uid215235/NC_022083.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_JM45_uid215235/NC_022083.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_JM45_uid215235/NC_022083.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_KCTC_2242_uid162147/NC_017540.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_KCTC_2242_uid162147/NC_017540.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_KCTC_2242_uid162147/NC_017540.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_KCTC_2242_uid162147/NC_017541.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_KCTC_2242_uid162147/NC_017541.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_KCTC_2242_uid162147/NC_017541.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009648.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009648.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009648.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009649.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009649.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009649.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009650.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009650.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009650.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009651.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009651.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009651.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009652.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009652.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009652.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009653.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009653.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_MGH_78578_uid57619/NC_009653.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_NTUH_K2044_uid59073/NC_006625.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_NTUH_K2044_uid59073/NC_006625.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_NTUH_K2044_uid59073/NC_006625.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_NTUH_K2044_uid59073/NC_012731.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_NTUH_K2044_uid59073/NC_012731.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_NTUH_K2044_uid59073/NC_012731.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_rhinoscleromatis_SB3432_uid203334/NC_021231.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_rhinoscleromatis_SB3432_uid203334/NC_021231.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_rhinoscleromatis_SB3432_uid203334/NC_021231.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_rhinoscleromatis_SB3432_uid203334/NC_021232.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_rhinoscleromatis_SB3432_uid203334/NC_021232.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_pneumoniae_rhinoscleromatis_SB3432_uid203334/NC_021232.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_variicola_At_22_uid42113/NC_013850.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_variicola_At_22_uid42113/NC_013850.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Klebsiella_variicola_At_22_uid42113/NC_013850.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kocuria_rhizophila_DC2201_uid59099/NC_010617.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kocuria_rhizophila_DC2201_uid59099/NC_010617.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kocuria_rhizophila_DC2201_uid59099/NC_010617.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kosmotoga_olearia_TBF_19_5_1_uid59205/NC_012785.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kosmotoga_olearia_TBF_19_5_1_uid59205/NC_012785.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kosmotoga_olearia_TBF_19_5_1_uid59205/NC_012785.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kribbella_flavida_DSM_17836_uid43465/NC_013729.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kribbella_flavida_DSM_17836_uid43465/NC_013729.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kribbella_flavida_DSM_17836_uid43465/NC_013729.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Krokinobacter_4H_3_7_5_uid66593/NC_015496.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Krokinobacter_4H_3_7_5_uid66593/NC_015496.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Krokinobacter_4H_3_7_5_uid66593/NC_015496.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kyrpidia_tusciae_DSM_2912_uid48361/NC_014098.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kyrpidia_tusciae_DSM_2912_uid48361/NC_014098.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kyrpidia_tusciae_DSM_2912_uid48361/NC_014098.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kytococcus_sedentarius_DSM_20547_uid59071/NC_013169.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kytococcus_sedentarius_DSM_20547_uid59071/NC_013169.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Kytococcus_sedentarius_DSM_20547_uid59071/NC_013169.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lacinutrix_5H_3_7_4_uid68067/NC_015638.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lacinutrix_5H_3_7_4_uid68067/NC_015638.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lacinutrix_5H_3_7_4_uid68067/NC_015638.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_30SC_uid63605/NC_015213.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_30SC_uid63605/NC_015213.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_30SC_uid63605/NC_015213.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_30SC_uid63605/NC_015214.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_30SC_uid63605/NC_015214.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_30SC_uid63605/NC_015214.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_30SC_uid63605/NC_015218.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_30SC_uid63605/NC_015218.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_30SC_uid63605/NC_015218.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_La_14_uid201479/NC_021181.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_La_14_uid201479/NC_021181.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_La_14_uid201479/NC_021181.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_NCFM_uid57685/NC_006814.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_NCFM_uid57685/NC_006814.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_acidophilus_NCFM_uid57685/NC_006814.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL1118_uid160233/NC_017470.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL1118_uid160233/NC_017470.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL1118_uid160233/NC_017470.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL1118_uid160233/NC_017471.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL1118_uid160233/NC_017471.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL1118_uid160233/NC_017471.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL1118_uid160233/NC_017472.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL1118_uid160233/NC_017472.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL1118_uid160233/NC_017472.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL_1112_uid61179/NC_014724.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL_1112_uid61179/NC_014724.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL_1112_uid61179/NC_014724.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL_1112_uid61179/NC_015319.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL_1112_uid61179/NC_015319.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL_1112_uid61179/NC_015319.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL_1112_uid61179/NC_015322.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL_1112_uid61179/NC_015322.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_amylovorus_GRL_1112_uid61179/NC_015322.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_ATCC_367_uid57989/NC_008497.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_ATCC_367_uid57989/NC_008497.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_ATCC_367_uid57989/NC_008497.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_ATCC_367_uid57989/NC_008498.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_ATCC_367_uid57989/NC_008498.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_ATCC_367_uid57989/NC_008498.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_ATCC_367_uid57989/NC_008499.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_ATCC_367_uid57989/NC_008499.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_ATCC_367_uid57989/NC_008499.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020819.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020819.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020819.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020820.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020820.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020820.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020821.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020821.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020821.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020822.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020822.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020822.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020823.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020823.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020823.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020824.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020824.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020824.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020825.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020825.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020825.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020826.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020826.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020826.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020827.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020827.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020827.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020828.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020828.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_brevis_KB290_uid195560/NC_020828.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015420.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015420.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015420.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015421.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015421.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015421.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015428.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015428.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015428.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015429.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015429.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_NRRL_B_30929_uid66205/NC_015429.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_016034.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_016034.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_016034.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_016035.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_016035.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_016035.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_018610.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_018610.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_018610.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_018611.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_018611.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_buchneri_uid73657/NC_018611.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_ATCC_334_uid57985/NC_008502.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_ATCC_334_uid57985/NC_008502.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_ATCC_334_uid57985/NC_008502.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_ATCC_334_uid57985/NC_008526.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_ATCC_334_uid57985/NC_008526.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_ATCC_334_uid57985/NC_008526.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_BD_II_uid162119/NC_017474.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_BD_II_uid162119/NC_017474.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_BD_II_uid162119/NC_017474.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_BD_II_uid162119/NC_017476.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_BD_II_uid162119/NC_017476.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_BD_II_uid162119/NC_017476.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_BL23_uid59237/NC_010999.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_BL23_uid59237/NC_010999.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_BL23_uid59237/NC_010999.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LC2W_uid162121/NC_017473.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LC2W_uid162121/NC_017473.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LC2W_uid162121/NC_017473.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LC2W_uid162121/NC_017475.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LC2W_uid162121/NC_017475.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LC2W_uid162121/NC_017475.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LOCK919_uid210959/NC_021721.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LOCK919_uid210959/NC_021721.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LOCK919_uid210959/NC_021721.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LOCK919_uid210959/NC_021722.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LOCK919_uid210959/NC_021722.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_LOCK919_uid210959/NC_021722.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_W56_uid178736/NC_018641.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_W56_uid178736/NC_018641.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_W56_uid178736/NC_018641.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_W56_uid178736/NC_020057.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_W56_uid178736/NC_020057.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_W56_uid178736/NC_020057.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_Zhang_uid50673/NC_011352.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_Zhang_uid50673/NC_011352.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_Zhang_uid50673/NC_011352.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_Zhang_uid50673/NC_014334.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_Zhang_uid50673/NC_014334.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_casei_Zhang_uid50673/NC_014334.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_crispatus_ST1_uid48359/NC_014106.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_crispatus_ST1_uid48359/NC_014106.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_crispatus_ST1_uid48359/NC_014106.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_2038_uid161929/NC_017469.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_2038_uid161929/NC_017469.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_2038_uid161929/NC_017469.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ATCC_11842_uid58647/NC_008054.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ATCC_11842_uid58647/NC_008054.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ATCC_11842_uid58647/NC_008054.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ATCC_BAA_365_uid57987/NC_008529.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ATCC_BAA_365_uid57987/NC_008529.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ATCC_BAA_365_uid57987/NC_008529.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ND02_uid60621/NC_014727.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ND02_uid60621/NC_014727.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ND02_uid60621/NC_014727.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ND02_uid60621/NC_014728.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ND02_uid60621/NC_014728.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_delbrueckii_bulgaricus_ND02_uid60621/NC_014728.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_fermentum_CECT_5716_uid162003/NC_017465.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_fermentum_CECT_5716_uid162003/NC_017465.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_fermentum_CECT_5716_uid162003/NC_017465.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_fermentum_F6_uid203391/NC_021235.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_fermentum_F6_uid203391/NC_021235.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_fermentum_F6_uid203391/NC_021235.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_fermentum_IFO_3956_uid58865/NC_010610.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_fermentum_IFO_3956_uid58865/NC_010610.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_fermentum_IFO_3956_uid58865/NC_010610.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_gasseri_ATCC_33323_uid57687/NC_008530.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_gasseri_ATCC_33323_uid57687/NC_008530.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_gasseri_ATCC_33323_uid57687/NC_008530.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_CNRZ32_uid212302/NC_021744.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_CNRZ32_uid212302/NC_021744.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_CNRZ32_uid212302/NC_021744.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_DPC_4571_uid58761/NC_010080.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_DPC_4571_uid58761/NC_010080.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_DPC_4571_uid58761/NC_010080.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_H10_uid162017/NC_017467.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_H10_uid162017/NC_017467.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_H10_uid162017/NC_017467.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_H10_uid162017/NC_017468.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_H10_uid162017/NC_017468.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_H10_uid162017/NC_017468.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_R0052_uid174439/NC_018528.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_R0052_uid174439/NC_018528.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_helveticus_R0052_uid174439/NC_018528.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_DPC_6026_uid162057/NC_017477.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_DPC_6026_uid162057/NC_017477.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_DPC_6026_uid162057/NC_017477.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_FI9785_uid41735/NC_012552.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_FI9785_uid41735/NC_012552.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_FI9785_uid41735/NC_012552.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_FI9785_uid41735/NC_013504.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_FI9785_uid41735/NC_013504.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_FI9785_uid41735/NC_013504.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_FI9785_uid41735/NC_013505.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_FI9785_uid41735/NC_013505.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_FI9785_uid41735/NC_013505.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_N6_2_uid229876/NC_022909.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_N6_2_uid229876/NC_022909.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_N6_2_uid229876/NC_022909.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_NCC_533_uid58029/NC_005362.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_NCC_533_uid58029/NC_005362.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_johnsonii_NCC_533_uid58029/NC_005362.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_kefiranofaciens_ZW3_uid67985/NC_015598.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_kefiranofaciens_ZW3_uid67985/NC_015598.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_kefiranofaciens_ZW3_uid67985/NC_015598.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_kefiranofaciens_ZW3_uid67985/NC_015602.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_kefiranofaciens_ZW3_uid67985/NC_015602.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_kefiranofaciens_ZW3_uid67985/NC_015602.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_kefiranofaciens_ZW3_uid67985/NC_015603.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_kefiranofaciens_ZW3_uid67985/NC_015603.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_kefiranofaciens_ZW3_uid67985/NC_015603.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_paracasei_8700_2_uid55295/NC_022112.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_paracasei_8700_2_uid55295/NC_022112.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_paracasei_8700_2_uid55295/NC_022112.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_paracasei_8700_2_uid55295/NC_022114.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_paracasei_8700_2_uid55295/NC_022114.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_paracasei_8700_2_uid55295/NC_022114.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_paracasei_8700_2_uid55295/NC_022123.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_paracasei_8700_2_uid55295/NC_022123.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_paracasei_8700_2_uid55295/NC_022123.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021514.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021514.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021514.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021515.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021515.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021515.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021517.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021517.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021517.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021518.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021518.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021518.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021519.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021519.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021519.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021520.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021520.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021520.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021525.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021525.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021525.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021526.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021526.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021526.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021527.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021527.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021527.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021528.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021528.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_16_uid209042/NC_021528.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_JDM1_uid59361/NC_012984.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_JDM1_uid59361/NC_012984.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_JDM1_uid59361/NC_012984.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021224.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021224.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021224.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021225.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021225.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021225.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021226.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021226.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021226.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021227.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021227.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021227.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021228.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021228.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021228.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021233.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021233.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021233.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021234.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021234.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_P8_uid203333/NC_021234.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ST_III_uid53537/NC_014554.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ST_III_uid53537/NC_014554.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ST_III_uid53537/NC_014554.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ST_III_uid53537/NC_014558.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ST_III_uid53537/NC_014558.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ST_III_uid53537/NC_014558.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_004567.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_004567.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_004567.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_006375.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_006375.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_006375.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_006376.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_006376.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_006376.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_006377.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_006377.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_WCFS1_uid62911/NC_006377.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_020229.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_020229.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_020229.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_021903.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_021903.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_021903.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_021904.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_021904.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_021904.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_021912.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_021912.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_plantarum_ZJ316_uid188689/NC_021912.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_DSM_20016_uid58471/NC_009513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_DSM_20016_uid58471/NC_009513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_DSM_20016_uid58471/NC_009513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021494.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021494.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021494.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021495.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021495.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021495.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021496.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021496.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021496.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021497.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021497.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021497.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021498.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021498.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021498.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021503.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021503.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021503.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021504.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021504.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_I5007_uid208677/NC_021504.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_JCM_1112_uid58875/NC_010609.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_JCM_1112_uid58875/NC_010609.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_JCM_1112_uid58875/NC_010609.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015697.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015697.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015697.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015698.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015698.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015698.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015699.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015699.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015699.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015700.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015700.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015700.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015701.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015701.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_SD2112_uid55357/NC_015701.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_TD1_uid213089/NC_021872.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_TD1_uid213089/NC_021872.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_reuteri_TD1_uid213089/NC_021872.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_ATCC_8530_uid162169/NC_017491.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_ATCC_8530_uid162169/NC_017491.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_ATCC_8530_uid162169/NC_017491.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_GG_uid161983/NC_017482.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_GG_uid161983/NC_017482.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_GG_uid161983/NC_017482.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_GG_uid59313/NC_013198.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_GG_uid59313/NC_013198.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_GG_uid59313/NC_013198.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_LOCK900_uid210957/NC_021723.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_LOCK900_uid210957/NC_021723.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_LOCK900_uid210957/NC_021723.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_LOCK908_uid210958/NC_021725.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_LOCK908_uid210958/NC_021725.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_LOCK908_uid210958/NC_021725.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_Lc_705_uid59315/NC_013199.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_Lc_705_uid59315/NC_013199.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_Lc_705_uid59315/NC_013199.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_Lc_705_uid59315/NC_013200.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_Lc_705_uid59315/NC_013200.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_rhamnosus_Lc_705_uid59315/NC_013200.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_ruminis_ATCC_27782_uid73417/NC_015975.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_ruminis_ATCC_27782_uid73417/NC_015975.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_ruminis_ATCC_27782_uid73417/NC_015975.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sakei_23K_uid58281/NC_007576.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sakei_23K_uid58281/NC_007576.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sakei_23K_uid58281/NC_007576.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017479.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017479.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017479.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017480.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017480.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017480.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017481.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017481.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017481.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017499.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017499.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_CECT_5713_uid162005/NC_017499.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_006529.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_006529.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_006529.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_006530.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_006530.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_006530.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_007929.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_007929.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_007929.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_007930.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_007930.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_salivarius_UCC118_uid58233/NC_007930.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sanfranciscensis_TMW_1_1304_uid72937/NC_015978.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sanfranciscensis_TMW_1_1304_uid72937/NC_015978.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sanfranciscensis_TMW_1_1304_uid72937/NC_015978.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sanfranciscensis_TMW_1_1304_uid72937/NC_015979.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sanfranciscensis_TMW_1_1304_uid72937/NC_015979.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sanfranciscensis_TMW_1_1304_uid72937/NC_015979.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sanfranciscensis_TMW_1_1304_uid72937/NC_015980.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sanfranciscensis_TMW_1_1304_uid72937/NC_015980.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactobacillus_sanfranciscensis_TMW_1_1304_uid72937/NC_015980.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_garvieae_ATCC_49156_uid73413/NC_015930.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_garvieae_ATCC_49156_uid73413/NC_015930.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_garvieae_ATCC_49156_uid73413/NC_015930.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_garvieae_Lg2_uid161935/NC_017490.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_garvieae_Lg2_uid161935/NC_017490.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_garvieae_Lg2_uid161935/NC_017490.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017483.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017483.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017483.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017484.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017484.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017484.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017485.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017485.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017485.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017486.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017486.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017486.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017487.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017487.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017487.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017488.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017488.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_CV56_uid160253/NC_017488.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_IO_1_uid192185/NC_020450.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_IO_1_uid192185/NC_020450.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_IO_1_uid192185/NC_020450.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_Il1403_uid57671/NC_002662.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_Il1403_uid57671/NC_002662.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_Il1403_uid57671/NC_002662.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KF147_uid42831/NC_013656.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KF147_uid42831/NC_013656.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KF147_uid42831/NC_013656.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KF147_uid42831/NC_013657.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KF147_uid42831/NC_013657.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KF147_uid42831/NC_013657.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KLDS_4_0325_uid225028/NC_022587.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KLDS_4_0325_uid225028/NC_022587.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KLDS_4_0325_uid225028/NC_022587.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KLDS_4_0325_uid225028/NC_022593.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KLDS_4_0325_uid225028/NC_022593.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_KLDS_4_0325_uid225028/NC_022593.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017492.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017492.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017492.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017493.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017493.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017493.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017495.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017495.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017495.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017496.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017496.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017496.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017497.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017497.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_A76_uid160937/NC_017497.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_KW2_uid219629/NC_022369.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_KW2_uid219629/NC_022369.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_KW2_uid219629/NC_022369.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_MG1363_uid58837/NC_009004.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_MG1363_uid58837/NC_009004.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_MG1363_uid58837/NC_009004.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_NZ9000_uid167481/NC_017949.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_NZ9000_uid167481/NC_017949.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_NZ9000_uid167481/NC_017949.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008503.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008503.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008503.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008504.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008504.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008504.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008505.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008505.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008505.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008506.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008506.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008506.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008507.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008507.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008507.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008527.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008527.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_SK11_uid57983/NC_008527.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019430.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019430.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019430.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019431.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019431.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019431.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019432.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019432.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019432.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019433.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019433.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019433.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019434.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019434.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019434.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019435.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019435.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019435.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019436.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019436.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019436.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019437.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019437.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019437.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019438.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019438.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lactococcus_lactis_cremoris_UC509_9_uid179384/NC_019438.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Laribacter_hongkongensis_HLHK9_uid59265/NC_012559.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Laribacter_hongkongensis_HLHK9_uid59265/NC_012559.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Laribacter_hongkongensis_HLHK9_uid59265/NC_012559.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020127.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020127.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020127.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020128.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020128.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020128.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020129.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020129.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020129.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020130.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020130.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_N343_uid186598/NC_020130.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008011.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008011.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008011.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008012.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008012.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008012.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008013.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008013.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008013.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008014.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008014.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lawsonia_intracellularis_PHE_MN1_00_uid61575/NC_008014.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leadbetterella_byssophila_DSM_17132_uid60161/NC_014655.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leadbetterella_byssophila_DSM_17132_uid60161/NC_014655.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leadbetterella_byssophila_DSM_17132_uid60161/NC_014655.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_longbeachae_NSW150_uid46099/NC_013861.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_longbeachae_NSW150_uid46099/NC_013861.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_longbeachae_NSW150_uid46099/NC_013861.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_longbeachae_NSW150_uid46099/NC_014544.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_longbeachae_NSW150_uid46099/NC_014544.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_longbeachae_NSW150_uid46099/NC_014544.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_2300_99_Alcoy_uid48801/NC_014125.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_2300_99_Alcoy_uid48801/NC_014125.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_2300_99_Alcoy_uid48801/NC_014125.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_ATCC_43290_uid86885/NC_016811.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_ATCC_43290_uid86885/NC_016811.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_ATCC_43290_uid86885/NC_016811.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Corby_uid58733/NC_009494.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Corby_uid58733/NC_009494.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Corby_uid58733/NC_009494.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_LPE509_uid193710/NC_020521.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_LPE509_uid193710/NC_020521.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_LPE509_uid193710/NC_020521.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_LPE509_uid193710/NC_020522.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_LPE509_uid193710/NC_020522.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_LPE509_uid193710/NC_020522.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lens_uid58209/NC_006366.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lens_uid58209/NC_006366.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lens_uid58209/NC_006366.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lens_uid58209/NC_006369.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lens_uid58209/NC_006369.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lens_uid58209/NC_006369.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lorraine_uid170535/NC_018139.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lorraine_uid170535/NC_018139.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lorraine_uid170535/NC_018139.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lorraine_uid170535/NC_018141.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lorraine_uid170535/NC_018141.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Lorraine_uid170535/NC_018141.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Paris_uid58211/NC_006365.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Paris_uid58211/NC_006365.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Paris_uid58211/NC_006365.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Paris_uid58211/NC_006368.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Paris_uid58211/NC_006368.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Paris_uid58211/NC_006368.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Philadelphia_1_uid57609/NC_002942.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Philadelphia_1_uid57609/NC_002942.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Philadelphia_1_uid57609/NC_002942.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Thunder_Bay_uid206517/NC_021350.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Thunder_Bay_uid206517/NC_021350.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_Thunder_Bay_uid206517/NC_021350.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_uid170534/NC_018140.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_uid170534/NC_018140.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Legionella_pneumophila_uid170534/NC_018140.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leifsonia_xyli_CTCB07_uid57759/NC_006087.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leifsonia_xyli_CTCB07_uid57759/NC_006087.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leifsonia_xyli_CTCB07_uid57759/NC_006087.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leifsonia_xyli_cynodontis_DSM_46306_uid221294/NC_022438.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leifsonia_xyli_cynodontis_DSM_46306_uid221294/NC_022438.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leifsonia_xyli_cynodontis_DSM_46306_uid221294/NC_022438.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leisingera_methylohalidivorans_DSM_14336_uid232356/NC_023135.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leisingera_methylohalidivorans_DSM_14336_uid232356/NC_023135.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leisingera_methylohalidivorans_DSM_14336_uid232356/NC_023135.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leisingera_methylohalidivorans_DSM_14336_uid232356/NC_023136.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leisingera_methylohalidivorans_DSM_14336_uid232356/NC_023136.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leisingera_methylohalidivorans_DSM_14336_uid232356/NC_023136.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leisingera_methylohalidivorans_DSM_14336_uid232356/NC_023146.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leisingera_methylohalidivorans_DSM_14336_uid232356/NC_023146.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leisingera_methylohalidivorans_DSM_14336_uid232356/NC_023146.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptolyngbya_PCC_7376_uid182928/NC_019683.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptolyngbya_PCC_7376_uid182928/NC_019683.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptolyngbya_PCC_7376_uid182928/NC_019683.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Ames__uid58511/NC_010842.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Ames__uid58511/NC_010842.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Ames__uid58511/NC_010842.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Ames__uid58511/NC_010845.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Ames__uid58511/NC_010845.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Ames__uid58511/NC_010845.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Ames__uid58511/NC_010846.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Ames__uid58511/NC_010846.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Ames__uid58511/NC_010846.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Paris__uid58993/NC_010602.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Paris__uid58993/NC_010602.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Paris__uid58993/NC_010602.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Paris__uid58993/NC_010843.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Paris__uid58993/NC_010843.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Paris__uid58993/NC_010843.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Paris__uid58993/NC_010844.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Paris__uid58993/NC_010844.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_biflexa_serovar_Patoc__Patoc_1__Paris__uid58993/NC_010844.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_JB197_uid58509/NC_008510.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_JB197_uid58509/NC_008510.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_JB197_uid58509/NC_008510.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_JB197_uid58509/NC_008511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_JB197_uid58509/NC_008511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_JB197_uid58509/NC_008511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_L550_uid58507/NC_008508.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_L550_uid58507/NC_008508.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_L550_uid58507/NC_008508.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_L550_uid58507/NC_008509.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_L550_uid58507/NC_008509.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_borgpetersenii_serovar_Hardjo_bovis_L550_uid58507/NC_008509.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Copenhageni_Fiocruz_L1_130_uid58065/NC_005823.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Copenhageni_Fiocruz_L1_130_uid58065/NC_005823.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Copenhageni_Fiocruz_L1_130_uid58065/NC_005823.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Copenhageni_Fiocruz_L1_130_uid58065/NC_005824.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Copenhageni_Fiocruz_L1_130_uid58065/NC_005824.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Copenhageni_Fiocruz_L1_130_uid58065/NC_005824.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_56601_uid57881/NC_004342.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_56601_uid57881/NC_004342.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_56601_uid57881/NC_004342.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_56601_uid57881/NC_004343.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_56601_uid57881/NC_004343.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_56601_uid57881/NC_004343.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_IPAV_uid161957/NC_017551.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_IPAV_uid161957/NC_017551.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_IPAV_uid161957/NC_017551.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_IPAV_uid161957/NC_017552.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_IPAV_uid161957/NC_017552.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospira_interrogans_serovar_Lai_IPAV_uid161957/NC_017552.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospirillum_ferriphilum_ML_04_uid175904/NC_018649.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospirillum_ferriphilum_ML_04_uid175904/NC_018649.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospirillum_ferriphilum_ML_04_uid175904/NC_018649.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospirillum_ferrooxidans_C2_3_uid158171/NC_017094.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospirillum_ferrooxidans_C2_3_uid158171/NC_017094.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptospirillum_ferrooxidans_C2_3_uid158171/NC_017094.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptothrix_cholodnii_SP_6_uid58971/NC_010524.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptothrix_cholodnii_SP_6_uid58971/NC_010524.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptothrix_cholodnii_SP_6_uid58971/NC_010524.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptotrichia_buccalis_C_1013_b_uid59211/NC_013192.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptotrichia_buccalis_C_1013_b_uid59211/NC_013192.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leptotrichia_buccalis_C_1013_b_uid59211/NC_013192.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_C2_uid68743/NC_015734.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_C2_uid68743/NC_015734.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_C2_uid68743/NC_015734.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018673.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018673.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018673.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018674.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018674.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018674.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018675.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018675.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018675.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018698.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018698.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018698.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018699.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018699.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_carnosum_JB16_uid176371/NC_018699.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010466.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010466.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010466.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010467.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010467.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010467.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010469.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010469.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010469.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010470.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010470.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010470.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010471.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010471.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_citreum_KM20_uid58481/NC_010471.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_gasicomitatum_LMG_18811_uid50385/NC_014319.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_gasicomitatum_LMG_18811_uid50385/NC_014319.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_gasicomitatum_LMG_18811_uid50385/NC_014319.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_gelidum_JB7_uid175682/NC_018631.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_gelidum_JB7_uid175682/NC_018631.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_gelidum_JB7_uid175682/NC_018631.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014131.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014131.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014131.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014132.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014132.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014132.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014133.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014133.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014133.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014134.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014134.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014134.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014135.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014135.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014135.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014136.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014136.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_kimchii_IMSNU_11154_uid48589/NC_014136.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_ATCC_8293_uid57919/NC_008496.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_ATCC_8293_uid57919/NC_008496.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_ATCC_8293_uid57919/NC_008496.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_ATCC_8293_uid57919/NC_008531.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_ATCC_8293_uid57919/NC_008531.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_ATCC_8293_uid57919/NC_008531.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016805.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016805.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016805.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016806.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016806.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016806.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016820.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016820.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016820.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016821.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016821.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016821.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016827.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016827.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016827.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016828.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016828.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Leuconostoc_mesenteroides_J18_uid84337/NC_016828.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_innocua_Clip11262_uid61567/NC_003212.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_innocua_Clip11262_uid61567/NC_003212.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_innocua_Clip11262_uid61567/NC_003212.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_innocua_Clip11262_uid61567/NC_003383.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_innocua_Clip11262_uid61567/NC_003383.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_innocua_Clip11262_uid61567/NC_003383.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_ivanovii_PAM_55_uid73473/NC_016011.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_ivanovii_PAM_55_uid73473/NC_016011.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_ivanovii_PAM_55_uid73473/NC_016011.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_07PF0776_uid162185/NC_017728.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_07PF0776_uid162185/NC_017728.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_07PF0776_uid162185/NC_017728.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_08_5923_uid43727/NC_013768.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_08_5923_uid43727/NC_013768.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_08_5923_uid43727/NC_013768.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_10403S_uid54461/NC_017544.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_10403S_uid54461/NC_017544.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_10403S_uid54461/NC_017544.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_ATCC_19117_uid175109/NC_018584.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_ATCC_19117_uid175109/NC_018584.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_ATCC_19117_uid175109/NC_018584.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_Clip80459_uid59317/NC_012488.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_Clip80459_uid59317/NC_012488.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_Clip80459_uid59317/NC_012488.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_EGD_e_uid61583/NC_003210.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_EGD_e_uid61583/NC_003210.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_EGD_e_uid61583/NC_003210.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_EGD_uid223288/NC_022568.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_EGD_uid223288/NC_022568.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_EGD_uid223288/NC_022568.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_FSL_R2_561_uid54441/NC_017546.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_FSL_R2_561_uid54441/NC_017546.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_FSL_R2_561_uid54441/NC_017546.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_Finland_1998_uid54443/NC_017547.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_Finland_1998_uid54443/NC_017547.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_Finland_1998_uid54443/NC_017547.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_HCC23_uid59203/NC_011660.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_HCC23_uid59203/NC_011660.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_HCC23_uid59203/NC_011660.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_J0161_uid54459/NC_017545.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_J0161_uid54459/NC_017545.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_J0161_uid54459/NC_017545.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_J1816_uid179734/NC_021829.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_J1816_uid179734/NC_021829.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_J1816_uid179734/NC_021829.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_J1_220_uid179735/NC_021830.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_J1_220_uid179735/NC_021830.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_J1_220_uid179735/NC_021830.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_L312_uid175768/NC_018642.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_L312_uid175768/NC_018642.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_L312_uid175768/NC_018642.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_La111_uid193768/NC_020557.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_La111_uid193768/NC_020557.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_La111_uid193768/NC_020557.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_M7_uid162131/NC_017537.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_M7_uid162131/NC_017537.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_M7_uid162131/NC_017537.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_N53_1_uid193767/NC_020558.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_N53_1_uid193767/NC_020558.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_N53_1_uid193767/NC_020558.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2376_uid175111/NC_018590.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2376_uid175111/NC_018590.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2376_uid175111/NC_018590.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2378_uid175105/NC_018585.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2378_uid175105/NC_018585.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2378_uid175105/NC_018585.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2479_uid175108/NC_018589.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2479_uid175108/NC_018589.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2479_uid175108/NC_018589.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2540_uid175106/NC_018586.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2540_uid175106/NC_018586.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC2540_uid175106/NC_018586.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC5850_uid175110/NC_018592.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC5850_uid175110/NC_018592.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC5850_uid175110/NC_018592.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC7179_uid175107/NC_018593.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC7179_uid175107/NC_018593.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_SLCC7179_uid175107/NC_018593.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2b_SLCC2755_uid52455/NC_014495.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2b_SLCC2755_uid52455/NC_014495.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2b_SLCC2755_uid52455/NC_014495.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2b_SLCC2755_uid52455/NC_018587.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2b_SLCC2755_uid52455/NC_018587.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2b_SLCC2755_uid52455/NC_018587.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2c_SLCC2372_uid174872/NC_018588.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2c_SLCC2372_uid174872/NC_018588.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2c_SLCC2372_uid174872/NC_018588.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2c_SLCC2372_uid174872/NC_018889.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2c_SLCC2372_uid174872/NC_018889.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_1_2c_SLCC2372_uid174872/NC_018889.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_4a_L99_uid161953/NC_017529.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_4a_L99_uid161953/NC_017529.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_4a_L99_uid161953/NC_017529.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_4b_F2365_uid57689/NC_002973.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_4b_F2365_uid57689/NC_002973.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_4b_F2365_uid57689/NC_002973.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_4b_LL195_uid182103/NC_019556.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_4b_LL195_uid182103/NC_019556.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_4b_LL195_uid182103/NC_019556.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_7_SLCC2482_uid174871/NC_018591.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_7_SLCC2482_uid174871/NC_018591.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_7_SLCC2482_uid174871/NC_018591.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_7_SLCC2482_uid174871/NC_018888.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_7_SLCC2482_uid174871/NC_018888.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_serotype_7_SLCC2482_uid174871/NC_018888.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_uid43671/NC_013766.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_uid43671/NC_013766.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_uid43671/NC_013766.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_uid43671/NC_013767.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_uid43671/NC_013767.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_monocytogenes_uid43671/NC_013767.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_seeligeri_serovar_1_2b_SLCC3954_uid46215/NC_013891.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_seeligeri_serovar_1_2b_SLCC3954_uid46215/NC_013891.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_seeligeri_serovar_1_2b_SLCC3954_uid46215/NC_013891.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_welshimeri_serovar_6b_SLCC5334_uid61605/NC_008555.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_welshimeri_serovar_6b_SLCC5334_uid61605/NC_008555.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listeria_welshimeri_serovar_6b_SLCC5334_uid61605/NC_008555.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listonella_anguillarum_M3_uid217771/NC_022223.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listonella_anguillarum_M3_uid217771/NC_022223.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listonella_anguillarum_M3_uid217771/NC_022223.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listonella_anguillarum_M3_uid217771/NC_022224.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listonella_anguillarum_M3_uid217771/NC_022224.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listonella_anguillarum_M3_uid217771/NC_022224.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listonella_anguillarum_M3_uid217771/NC_022225.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listonella_anguillarum_M3_uid217771/NC_022225.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Listonella_anguillarum_M3_uid217771/NC_022225.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lysinibacillus_sphaericus_C3_41_uid58945/NC_010381.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lysinibacillus_sphaericus_C3_41_uid58945/NC_010381.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lysinibacillus_sphaericus_C3_41_uid58945/NC_010381.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lysinibacillus_sphaericus_C3_41_uid58945/NC_010382.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lysinibacillus_sphaericus_C3_41_uid58945/NC_010382.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Lysinibacillus_sphaericus_C3_41_uid58945/NC_010382.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011995.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011995.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011995.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011996.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011996.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011996.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011997.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011997.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011997.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011998.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011998.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011998.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011999.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011999.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_011999.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012000.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012000.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012000.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012001.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012001.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012001.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012002.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012002.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012002.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012003.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012003.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Macrococcus_caseolyticus_JCSC5402_uid59003/NC_012003.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Magnetococcus_MC_1_uid57833/NC_008576.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Magnetococcus_MC_1_uid57833/NC_008576.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Magnetococcus_MC_1_uid57833/NC_008576.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Magnetospirillum_gryphiswaldense_MSR_1_uid232249/NC_023065.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Magnetospirillum_gryphiswaldense_MSR_1_uid232249/NC_023065.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Magnetospirillum_gryphiswaldense_MSR_1_uid232249/NC_023065.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Magnetospirillum_magneticum_AMB_1_uid58527/NC_007626.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Magnetospirillum_magneticum_AMB_1_uid58527/NC_007626.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Magnetospirillum_magneticum_AMB_1_uid58527/NC_007626.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mahella_australiensis_50_1_BON_uid66917/NC_015520.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mahella_australiensis_50_1_BON_uid66917/NC_015520.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mahella_australiensis_50_1_BON_uid66917/NC_015520.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_D153_uid212303/NC_021743.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_D153_uid212303/NC_021743.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_D153_uid212303/NC_021743.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_D171_uid212304/NC_021738.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_D171_uid212304/NC_021738.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_D171_uid212304/NC_021738.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_D174_uid212305/NC_021739.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_D174_uid212305/NC_021739.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_D174_uid212305/NC_021739.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_M42548_uid198769/NC_021082.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_M42548_uid198769/NC_021082.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_M42548_uid198769/NC_021082.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_USDA_ARS_SAM_185_uid195457/NC_020834.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_USDA_ARS_SAM_185_uid195457/NC_020834.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_USDA_ARS_SAM_185_uid195457/NC_020834.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_USDA_ARS_USMARC_183_uid195458/NC_020833.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_USDA_ARS_USMARC_183_uid195458/NC_020833.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_USDA_ARS_USMARC_183_uid195458/NC_020833.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_USMARC_2286_uid213228/NC_021883.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_USMARC_2286_uid213228/NC_021883.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_haemolytica_USMARC_2286_uid213228/NC_021883.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_succiniciproducens_MBEL55E_uid58197/NC_006300.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_succiniciproducens_MBEL55E_uid58197/NC_006300.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mannheimia_succiniciproducens_MBEL55E_uid58197/NC_006300.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Maricaulis_maris_MCS10_uid58689/NC_008347.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Maricaulis_maris_MCS10_uid58689/NC_008347.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Maricaulis_maris_MCS10_uid58689/NC_008347.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinithermus_hydrothermalis_DSM_14884_uid65783/NC_015387.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinithermus_hydrothermalis_DSM_14884_uid65783/NC_015387.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinithermus_hydrothermalis_DSM_14884_uid65783/NC_015387.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinitoga_piezophila_KA3_uid81629/NC_016748.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinitoga_piezophila_KA3_uid81629/NC_016748.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinitoga_piezophila_KA3_uid81629/NC_016748.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinitoga_piezophila_KA3_uid81629/NC_016751.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinitoga_piezophila_KA3_uid81629/NC_016751.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinitoga_piezophila_KA3_uid81629/NC_016751.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_BSs20148_uid171995/NC_018268.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_BSs20148_uid171995/NC_018268.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_BSs20148_uid171995/NC_018268.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_adhaerens_HP15_uid162009/NC_017506.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_adhaerens_HP15_uid162009/NC_017506.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_adhaerens_HP15_uid162009/NC_017506.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_adhaerens_HP15_uid162009/NC_017507.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_adhaerens_HP15_uid162009/NC_017507.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_adhaerens_HP15_uid162009/NC_017507.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_adhaerens_HP15_uid162009/NC_017508.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_adhaerens_HP15_uid162009/NC_017508.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_adhaerens_HP15_uid162009/NC_017508.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_aquaeolei_VT8_uid59419/NC_008738.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_aquaeolei_VT8_uid59419/NC_008738.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_aquaeolei_VT8_uid59419/NC_008738.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_aquaeolei_VT8_uid59419/NC_008739.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_aquaeolei_VT8_uid59419/NC_008739.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_aquaeolei_VT8_uid59419/NC_008739.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_aquaeolei_VT8_uid59419/NC_008740.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_aquaeolei_VT8_uid59419/NC_008740.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_aquaeolei_VT8_uid59419/NC_008740.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_hydrocarbonoclasticus_ATCC_49840_uid162203/NC_017067.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_hydrocarbonoclasticus_ATCC_49840_uid162203/NC_017067.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinobacter_hydrocarbonoclasticus_ATCC_49840_uid162203/NC_017067.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinomonas_MWYL1_uid58715/NC_009654.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinomonas_MWYL1_uid58715/NC_009654.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinomonas_MWYL1_uid58715/NC_009654.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinomonas_mediterranea_MMB_1_uid64753/NC_015276.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinomonas_mediterranea_MMB_1_uid64753/NC_015276.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinomonas_mediterranea_MMB_1_uid64753/NC_015276.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinomonas_posidonica_IVIA_Po_181_uid67323/NC_015559.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinomonas_posidonica_IVIA_Po_181_uid67323/NC_015559.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marinomonas_posidonica_IVIA_Po_181_uid67323/NC_015559.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marivirga_tractuosa_DSM_4126_uid60837/NC_014750.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marivirga_tractuosa_DSM_4126_uid60837/NC_014750.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marivirga_tractuosa_DSM_4126_uid60837/NC_014750.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marivirga_tractuosa_DSM_4126_uid60837/NC_014759.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marivirga_tractuosa_DSM_4126_uid60837/NC_014759.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Marivirga_tractuosa_DSM_4126_uid60837/NC_014759.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Megamonas_hypermegale_uid197163/NC_021041.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Megamonas_hypermegale_uid197163/NC_021041.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Megamonas_hypermegale_uid197163/NC_021041.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Megasphaera_elsdenii_DSM_20460_uid71135/NC_015873.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Megasphaera_elsdenii_DSM_20460_uid71135/NC_015873.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Megasphaera_elsdenii_DSM_20460_uid71135/NC_015873.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_ruber_DSM_1279_uid198526/NC_021081.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_ruber_DSM_1279_uid198526/NC_021081.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_ruber_DSM_1279_uid198526/NC_021081.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_ruber_DSM_1279_uid46661/NC_013946.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_ruber_DSM_1279_uid46661/NC_013946.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_ruber_DSM_1279_uid46661/NC_013946.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_silvanus_DSM_9946_uid49485/NC_014212.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_silvanus_DSM_9946_uid49485/NC_014212.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_silvanus_DSM_9946_uid49485/NC_014212.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_silvanus_DSM_9946_uid49485/NC_014213.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_silvanus_DSM_9946_uid49485/NC_014213.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_silvanus_DSM_9946_uid49485/NC_014213.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_silvanus_DSM_9946_uid49485/NC_014214.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_silvanus_DSM_9946_uid49485/NC_014214.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Meiothermus_silvanus_DSM_9946_uid49485/NC_014214.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melioribacter_roseus_P3M_uid170941/NC_018178.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melioribacter_roseus_P3M_uid170941/NC_018178.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melioribacter_roseus_P3M_uid170941/NC_018178.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_ATCC_35311_uid66803/NC_015516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_ATCC_35311_uid66803/NC_015516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_ATCC_35311_uid66803/NC_015516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_ATCC_35311_uid66803/NC_015517.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_ATCC_35311_uid66803/NC_015517.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_ATCC_35311_uid66803/NC_015517.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_DAT561_uid89371/NC_016938.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_DAT561_uid89371/NC_016938.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_DAT561_uid89371/NC_016938.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_DAT561_uid89371/NC_018265.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_DAT561_uid89371/NC_018265.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Melissococcus_plutonius_DAT561_uid89371/NC_018265.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesoplasma_florum_L1_uid58055/NC_006055.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesoplasma_florum_L1_uid58055/NC_006055.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesoplasma_florum_L1_uid58055/NC_006055.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesoplasma_florum_W37_uid224253/NC_022583.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesoplasma_florum_W37_uid224253/NC_022583.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesoplasma_florum_W37_uid224253/NC_022583.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_australicum_WSM2073_uid75101/NC_019973.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_australicum_WSM2073_uid75101/NC_019973.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_australicum_WSM2073_uid75101/NC_019973.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_ciceri_biovar_biserrulae_WSM1271_uid62101/NC_014918.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_ciceri_biovar_biserrulae_WSM1271_uid62101/NC_014918.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_ciceri_biovar_biserrulae_WSM1271_uid62101/NC_014918.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_ciceri_biovar_biserrulae_WSM1271_uid62101/NC_014923.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_ciceri_biovar_biserrulae_WSM1271_uid62101/NC_014923.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_ciceri_biovar_biserrulae_WSM1271_uid62101/NC_014923.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_loti_MAFF303099_uid57601/NC_002678.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_loti_MAFF303099_uid57601/NC_002678.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_loti_MAFF303099_uid57601/NC_002678.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_loti_MAFF303099_uid57601/NC_002679.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_loti_MAFF303099_uid57601/NC_002679.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_loti_MAFF303099_uid57601/NC_002679.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_loti_MAFF303099_uid57601/NC_002682.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_loti_MAFF303099_uid57601/NC_002682.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_loti_MAFF303099_uid57601/NC_002682.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_opportunistum_WSM2075_uid40861/NC_015675.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_opportunistum_WSM2075_uid40861/NC_015675.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesorhizobium_opportunistum_WSM2075_uid40861/NC_015675.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesotoga_prima_MesG1_Ag_4_2_uid52599/NC_017934.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesotoga_prima_MesG1_Ag_4_2_uid52599/NC_017934.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesotoga_prima_MesG1_Ag_4_2_uid52599/NC_017934.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesotoga_prima_MesG1_Ag_4_2_uid52599/NC_017935.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesotoga_prima_MesG1_Ag_4_2_uid52599/NC_017935.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mesotoga_prima_MesG1_Ag_4_2_uid52599/NC_017935.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobacterium_AL_21_uid63623/NC_015216.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobacterium_AL_21_uid63623/NC_015216.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobacterium_AL_21_uid63623/NC_015216.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobacterium_MB1_uid231690/NC_023044.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobacterium_MB1_uid231690/NC_023044.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobacterium_MB1_uid231690/NC_023044.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobacterium_SWAN_1_uid67359/NC_015574.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobacterium_SWAN_1_uid67359/NC_015574.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobacterium_SWAN_1_uid67359/NC_015574.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobrevibacter_AbM4_uid206516/NC_021355.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobrevibacter_AbM4_uid206516/NC_021355.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanobrevibacter_AbM4_uid206516/NC_021355.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanocaldococcus_FS406_22_uid42499/NC_013887.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanocaldococcus_FS406_22_uid42499/NC_013887.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanocaldococcus_FS406_22_uid42499/NC_013887.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanocaldococcus_FS406_22_uid42499/NC_013888.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanocaldococcus_FS406_22_uid42499/NC_013888.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanocaldococcus_FS406_22_uid42499/NC_013888.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanomassiliicoccus_Mx1_Issoire_uid207287/NC_021353.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanomassiliicoccus_Mx1_Issoire_uid207287/NC_021353.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanomassiliicoccus_Mx1_Issoire_uid207287/NC_021353.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanoplanus_petrolearius_DSM_11571_uid52695/NC_014507.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanoplanus_petrolearius_DSM_11571_uid52695/NC_014507.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanoplanus_petrolearius_DSM_11571_uid52695/NC_014507.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanoregula_formicicum_SMSP_uid184406/NC_019943.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanoregula_formicicum_SMSP_uid184406/NC_019943.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methanoregula_formicicum_SMSP_uid184406/NC_019943.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylacidiphilum_infernorum_V4_uid59161/NC_010794.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylacidiphilum_infernorum_V4_uid59161/NC_010794.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylacidiphilum_infernorum_V4_uid59161/NC_010794.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylibium_petroleiphilum_PM1_uid58085/NC_008825.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylibium_petroleiphilum_PM1_uid58085/NC_008825.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylibium_petroleiphilum_PM1_uid58085/NC_008825.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylibium_petroleiphilum_PM1_uid58085/NC_008826.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylibium_petroleiphilum_PM1_uid58085/NC_008826.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylibium_petroleiphilum_PM1_uid58085/NC_008826.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacillus_flagellatus_KT_uid58049/NC_007947.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacillus_flagellatus_KT_uid58049/NC_007947.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacillus_flagellatus_KT_uid58049/NC_007947.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_4_46_uid58843/NC_010373.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_4_46_uid58843/NC_010373.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_4_46_uid58843/NC_010373.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_4_46_uid58843/NC_010374.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_4_46_uid58843/NC_010374.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_4_46_uid58843/NC_010374.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_4_46_uid58843/NC_010511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_4_46_uid58843/NC_010511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_4_46_uid58843/NC_010511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_chloromethanicum_CM4_uid58933/NC_011757.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_chloromethanicum_CM4_uid58933/NC_011757.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_chloromethanicum_CM4_uid58933/NC_011757.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_chloromethanicum_CM4_uid58933/NC_011758.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_chloromethanicum_CM4_uid58933/NC_011758.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_chloromethanicum_CM4_uid58933/NC_011758.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_chloromethanicum_CM4_uid58933/NC_011760.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_chloromethanicum_CM4_uid58933/NC_011760.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_chloromethanicum_CM4_uid58933/NC_011760.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012807.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012807.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012807.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012808.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012808.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012808.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012809.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012809.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012809.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012810.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012810.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012810.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012811.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012811.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_AM1_uid57605/NC_012811.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_DM4_uid61617/NC_012987.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_DM4_uid61617/NC_012987.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_DM4_uid61617/NC_012987.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_DM4_uid61617/NC_012988.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_DM4_uid61617/NC_012988.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_DM4_uid61617/NC_012988.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_DM4_uid61617/NC_012989.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_DM4_uid61617/NC_012989.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_DM4_uid61617/NC_012989.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_PA1_uid58821/NC_010172.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_PA1_uid58821/NC_010172.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_extorquens_PA1_uid58821/NC_010172.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011887.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011887.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011887.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011888.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011888.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011888.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011889.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011889.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011889.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011890.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011890.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011890.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011892.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011892.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011892.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011893.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011893.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011893.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011894.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011894.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011894.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011895.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011895.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_nodulans_ORS_2060_uid59023/NC_011895.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_populi_BJ001_uid58937/NC_010721.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_populi_BJ001_uid58937/NC_010721.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_populi_BJ001_uid58937/NC_010721.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_populi_BJ001_uid58937/NC_010725.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_populi_BJ001_uid58937/NC_010725.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_populi_BJ001_uid58937/NC_010725.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_populi_BJ001_uid58937/NC_010727.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_populi_BJ001_uid58937/NC_010727.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_populi_BJ001_uid58937/NC_010727.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010502.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010502.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010502.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010504.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010504.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010504.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010505.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010505.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010505.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010507.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010507.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010507.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010509.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010509.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010509.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010510.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010510.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010510.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010514.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010514.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010514.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010517.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010517.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010517.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010518.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010518.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylobacterium_radiotolerans_JCM_2831_uid58845/NC_010518.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylocella_silvestris_BL2_uid59433/NC_011666.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylocella_silvestris_BL2_uid59433/NC_011666.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylocella_silvestris_BL2_uid59433/NC_011666.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylococcus_capsulatus_Bath_uid57607/NC_002977.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylococcus_capsulatus_Bath_uid57607/NC_002977.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylococcus_capsulatus_Bath_uid57607/NC_002977.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylocystis_SC2_uid174072/NC_018485.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylocystis_SC2_uid174072/NC_018485.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylocystis_SC2_uid174072/NC_018485.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylomicrobium_alcaliphilum_uid77119/NC_016112.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylomicrobium_alcaliphilum_uid77119/NC_016112.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylomicrobium_alcaliphilum_uid77119/NC_016112.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylomonas_methanica_MC09_uid67363/NC_015572.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylomonas_methanica_MC09_uid67363/NC_015572.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylomonas_methanica_MC09_uid67363/NC_015572.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylophaga_JAM1_uid162947/NC_017857.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylophaga_JAM1_uid162947/NC_017857.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylophaga_JAM1_uid162947/NC_017857.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylophaga_JAM7_uid162949/NC_017856.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylophaga_JAM7_uid162949/NC_017856.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylophaga_JAM7_uid162949/NC_017856.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylophaga_JAM7_uid162949/NC_017858.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylophaga_JAM7_uid162949/NC_017858.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylophaga_JAM7_uid162949/NC_017858.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylotenera_301_uid49469/NC_014207.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylotenera_301_uid49469/NC_014207.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylotenera_301_uid49469/NC_014207.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylotenera_mobilis_JLW8_uid59373/NC_012968.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylotenera_mobilis_JLW8_uid59373/NC_012968.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylotenera_mobilis_JLW8_uid59373/NC_012968.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_MP688_uid60723/NC_014733.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_MP688_uid60723/NC_014733.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_MP688_uid60723/NC_014733.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_glucosetrophus_SIP3_4_uid59367/NC_012969.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_glucosetrophus_SIP3_4_uid59367/NC_012969.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_glucosetrophus_SIP3_4_uid59367/NC_012969.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_glucosetrophus_SIP3_4_uid59367/NC_012970.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_glucosetrophus_SIP3_4_uid59367/NC_012970.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_glucosetrophus_SIP3_4_uid59367/NC_012970.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_glucosetrophus_SIP3_4_uid59367/NC_012972.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_glucosetrophus_SIP3_4_uid59367/NC_012972.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Methylovorus_glucosetrophus_SIP3_4_uid59367/NC_012972.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micavibrio_EPB_uid194120/NC_020812.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micavibrio_EPB_uid194120/NC_020812.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micavibrio_EPB_uid194120/NC_020812.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micavibrio_aeruginosavorus_ARL_13_uid73585/NC_016026.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micavibrio_aeruginosavorus_ARL_13_uid73585/NC_016026.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micavibrio_aeruginosavorus_ARL_13_uid73585/NC_016026.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microbacterium_testaceum_StLB037_uid62789/NC_015125.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microbacterium_testaceum_StLB037_uid62789/NC_015125.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microbacterium_testaceum_StLB037_uid62789/NC_015125.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micrococcus_luteus_NCTC_2665_uid59033/NC_012803.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micrococcus_luteus_NCTC_2665_uid59033/NC_012803.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micrococcus_luteus_NCTC_2665_uid59033/NC_012803.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019738.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019738.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019738.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019739.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019739.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019739.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019740.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019740.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019740.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019741.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019741.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019741.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019742.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019742.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019742.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019743.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019743.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019743.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019760.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019760.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019760.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019761.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019761.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019761.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019762.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019762.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcoleus_PCC_7113_uid183114/NC_019762.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcystis_aeruginosa_NIES_843_uid59101/NC_010296.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcystis_aeruginosa_NIES_843_uid59101/NC_010296.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microcystis_aeruginosa_NIES_843_uid59101/NC_010296.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microlunatus_phosphovorus_NM_1_uid68055/NC_015635.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microlunatus_phosphovorus_NM_1_uid68055/NC_015635.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Microlunatus_phosphovorus_NM_1_uid68055/NC_015635.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micromonospora_L5_uid45895/NC_014815.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micromonospora_L5_uid45895/NC_014815.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micromonospora_L5_uid45895/NC_014815.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micromonospora_aurantiaca_ATCC_27029_uid42501/NC_014391.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micromonospora_aurantiaca_ATCC_27029_uid42501/NC_014391.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Micromonospora_aurantiaca_ATCC_27029_uid42501/NC_014391.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mobiluncus_curtisii_ATCC_43063_uid49695/NC_014246.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mobiluncus_curtisii_ATCC_43063_uid49695/NC_014246.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mobiluncus_curtisii_ATCC_43063_uid49695/NC_014246.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Modestobacter_marinus_uid167487/NC_017955.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Modestobacter_marinus_uid167487/NC_017955.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Modestobacter_marinus_uid167487/NC_017955.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Moorella_thermoacetica_ATCC_39073_uid58051/NC_007644.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Moorella_thermoacetica_ATCC_39073_uid58051/NC_007644.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Moorella_thermoacetica_ATCC_39073_uid58051/NC_007644.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Moraxella_catarrhalis_BBH18_uid48809/NC_014147.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Moraxella_catarrhalis_BBH18_uid48809/NC_014147.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Moraxella_catarrhalis_BBH18_uid48809/NC_014147.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Morganella_morganii_KT_uid180867/NC_020418.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Morganella_morganii_KT_uid180867/NC_020418.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Morganella_morganii_KT_uid180867/NC_020418.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Muricauda_ruestringensis_DSM_13258_uid72479/NC_015945.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Muricauda_ruestringensis_DSM_13258_uid72479/NC_015945.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Muricauda_ruestringensis_DSM_13258_uid72479/NC_015945.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_JDM601_uid67369/NC_015576.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_JDM601_uid67369/NC_015576.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_JDM601_uid67369/NC_015576.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_JLS_uid58489/NC_009077.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_JLS_uid58489/NC_009077.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_JLS_uid58489/NC_009077.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_KMS_uid58491/NC_008703.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_KMS_uid58491/NC_008703.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_KMS_uid58491/NC_008703.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_KMS_uid58491/NC_008704.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_KMS_uid58491/NC_008704.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_KMS_uid58491/NC_008704.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_KMS_uid58491/NC_008705.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_KMS_uid58491/NC_008705.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_KMS_uid58491/NC_008705.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_MCS_uid58465/NC_008146.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_MCS_uid58465/NC_008146.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_MCS_uid58465/NC_008146.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_MCS_uid58465/NC_008147.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_MCS_uid58465/NC_008147.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_MCS_uid58465/NC_008147.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_MOTT36Y_uid164001/NC_017904.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_MOTT36Y_uid164001/NC_017904.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_MOTT36Y_uid164001/NC_017904.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_VKM_Ac_1815D_uid199859/NC_023036.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_VKM_Ac_1815D_uid199859/NC_023036.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_VKM_Ac_1815D_uid199859/NC_023036.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_bolletii_50594_uid205422/NC_021278.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_bolletii_50594_uid205422/NC_021278.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_bolletii_50594_uid205422/NC_021278.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_bolletii_50594_uid205422/NC_021279.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_bolletii_50594_uid205422/NC_021279.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_bolletii_50594_uid205422/NC_021279.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_bolletii_50594_uid205422/NC_021282.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_bolletii_50594_uid205422/NC_021282.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_bolletii_50594_uid205422/NC_021282.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_uid61613/NC_010394.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_uid61613/NC_010394.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_uid61613/NC_010394.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_uid61613/NC_010397.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_uid61613/NC_010397.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_abscessus_uid61613/NC_010397.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_africanum_GM041182_uid68839/NC_015758.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_africanum_GM041182_uid68839/NC_015758.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_africanum_GM041182_uid68839/NC_015758.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_avium_104_uid57693/NC_008595.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_avium_104_uid57693/NC_008595.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_avium_104_uid57693/NC_008595.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_avium_paratuberculosis_K_10_uid57699/NC_002944.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_avium_paratuberculosis_K_10_uid57699/NC_002944.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_avium_paratuberculosis_K_10_uid57699/NC_002944.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_avium_paratuberculosis_MAP4_uid202426/NC_021200.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_avium_paratuberculosis_MAP4_uid202426/NC_021200.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_avium_paratuberculosis_MAP4_uid202426/NC_021200.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_AF2122_97_uid57695/NC_002945.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_AF2122_97_uid57695/NC_002945.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_AF2122_97_uid57695/NC_002945.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Korea_1168P_uid189029/NC_020245.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Korea_1168P_uid189029/NC_020245.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Korea_1168P_uid189029/NC_020245.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Mexico_uid86889/NC_016804.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Mexico_uid86889/NC_016804.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Mexico_uid86889/NC_016804.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Pasteur_1173P2_uid58781/NC_008769.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Pasteur_1173P2_uid58781/NC_008769.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Pasteur_1173P2_uid58781/NC_008769.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Tokyo_172_uid59281/NC_012207.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Tokyo_172_uid59281/NC_012207.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_bovis_BCG_Tokyo_172_uid59281/NC_012207.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140010059_uid70731/NC_015848.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140010059_uid70731/NC_015848.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140010059_uid70731/NC_015848.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140060008_uid184829/NC_019950.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140060008_uid184829/NC_019950.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140060008_uid184829/NC_019950.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140070008_uid184832/NC_019965.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140070008_uid184832/NC_019965.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140070008_uid184832/NC_019965.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140070010_uid184828/NC_019951.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140070010_uid184828/NC_019951.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140070010_uid184828/NC_019951.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140070017_uid184830/NC_019952.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140070017_uid184830/NC_019952.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_canettii_CIPT_140070017_uid184830/NC_019952.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_chubuense_NBB4_uid168322/NC_018022.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_chubuense_NBB4_uid168322/NC_018022.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_chubuense_NBB4_uid168322/NC_018022.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_chubuense_NBB4_uid168322/NC_018023.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_chubuense_NBB4_uid168322/NC_018023.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_chubuense_NBB4_uid168322/NC_018023.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_chubuense_NBB4_uid168322/NC_018027.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_chubuense_NBB4_uid168322/NC_018027.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_chubuense_NBB4_uid168322/NC_018027.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009338.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009338.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009338.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009339.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009339.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009339.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009340.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009340.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009340.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009341.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009341.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_PYR_GCK_uid59421/NC_009341.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_Spyr1_uid61403/NC_014811.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_Spyr1_uid61403/NC_014811.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_Spyr1_uid61403/NC_014811.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_Spyr1_uid61403/NC_014812.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_Spyr1_uid61403/NC_014812.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_Spyr1_uid61403/NC_014812.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_Spyr1_uid61403/NC_014814.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_Spyr1_uid61403/NC_014814.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_gilvum_Spyr1_uid61403/NC_014814.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_indicus_pranii_MTCC_9506_uid175523/NC_018612.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_indicus_pranii_MTCC_9506_uid175523/NC_018612.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_indicus_pranii_MTCC_9506_uid175523/NC_018612.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_intracellulare_ATCC_13950_uid167994/NC_016946.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_intracellulare_ATCC_13950_uid167994/NC_016946.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_intracellulare_ATCC_13950_uid167994/NC_016946.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_intracellulare_MOTT_02_uid89387/NC_016947.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_intracellulare_MOTT_02_uid89387/NC_016947.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_intracellulare_MOTT_02_uid89387/NC_016947.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_intracellulare_MOTT_64_uid89385/NC_016948.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_intracellulare_MOTT_64_uid89385/NC_016948.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_intracellulare_MOTT_64_uid89385/NC_016948.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_kansasii_ATCC_12478_uid55385/NC_022654.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_kansasii_ATCC_12478_uid55385/NC_022654.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_kansasii_ATCC_12478_uid55385/NC_022654.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_kansasii_ATCC_12478_uid55385/NC_022663.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_kansasii_ATCC_12478_uid55385/NC_022663.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_kansasii_ATCC_12478_uid55385/NC_022663.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_leprae_Br4923_uid59293/NC_011896.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_leprae_Br4923_uid59293/NC_011896.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_leprae_Br4923_uid59293/NC_011896.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_leprae_TN_uid57697/NC_002677.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_leprae_TN_uid57697/NC_002677.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_leprae_TN_uid57697/NC_002677.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_liflandii_128FXT_uid59005/NC_011355.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_liflandii_128FXT_uid59005/NC_011355.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_liflandii_128FXT_uid59005/NC_011355.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_liflandii_128FXT_uid59005/NC_020133.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_liflandii_128FXT_uid59005/NC_020133.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_liflandii_128FXT_uid59005/NC_020133.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_marinum_M_uid59423/NC_010604.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_marinum_M_uid59423/NC_010604.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_marinum_M_uid59423/NC_010604.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_marinum_M_uid59423/NC_010612.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_marinum_M_uid59423/NC_010612.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_marinum_M_uid59423/NC_010612.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_massiliense_GO_06_uid170732/NC_018150.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_massiliense_GO_06_uid170732/NC_018150.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_massiliense_GO_06_uid170732/NC_018150.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_rhodesiae_NBB3_uid75107/NC_016604.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_rhodesiae_NBB3_uid75107/NC_016604.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_rhodesiae_NBB3_uid75107/NC_016604.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019957.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019957.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019957.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019959.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019959.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019959.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019966.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019966.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_JS623_uid184820/NC_019966.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_MC2_155_uid171958/NC_018289.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_MC2_155_uid171958/NC_018289.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_MC2_155_uid171958/NC_018289.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_MC2_155_uid57701/NC_008596.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_MC2_155_uid57701/NC_008596.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_smegmatis_MC2_155_uid57701/NC_008596.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Beijing_NITR203_uid197218/NC_021054.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Beijing_NITR203_uid197218/NC_021054.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Beijing_NITR203_uid197218/NC_021054.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CAS_NITR204_uid202217/NC_021193.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CAS_NITR204_uid202217/NC_021193.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CAS_NITR204_uid202217/NC_021193.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CCDC5079_uid161943/NC_017523.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CCDC5079_uid161943/NC_017523.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CCDC5079_uid161943/NC_017523.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CCDC5079_uid203790/NC_021251.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CCDC5079_uid203790/NC_021251.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CCDC5079_uid203790/NC_021251.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CCDC5180_uid161941/NC_017522.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CCDC5180_uid161941/NC_017522.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CCDC5180_uid161941/NC_017522.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CDC1551_uid57775/NC_002755.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CDC1551_uid57775/NC_002755.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CDC1551_uid57775/NC_002755.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CTRI_2_uid161997/NC_017524.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CTRI_2_uid161997/NC_017524.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_CTRI_2_uid161997/NC_017524.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_EAI5_NITR206_uid202218/NC_021194.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_EAI5_NITR206_uid202218/NC_021194.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_EAI5_NITR206_uid202218/NC_021194.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_EAI5_uid212307/NC_021740.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_EAI5_uid212307/NC_021740.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_EAI5_uid212307/NC_021740.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Erdman___ATCC_35801_uid193763/NC_020559.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Erdman___ATCC_35801_uid193763/NC_020559.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Erdman___ATCC_35801_uid193763/NC_020559.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_F11_uid58417/NC_009565.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_F11_uid58417/NC_009565.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_F11_uid58417/NC_009565.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_H37Ra_uid58853/NC_009525.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_H37Ra_uid58853/NC_009525.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_H37Ra_uid58853/NC_009525.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_H37Rv_uid170532/NC_018143.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_H37Rv_uid170532/NC_018143.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_H37Rv_uid170532/NC_018143.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_H37Rv_uid57777/NC_000962.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_H37Rv_uid57777/NC_000962.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_H37Rv_uid57777/NC_000962.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Haarlem3_NITR202_uid202216/NC_021192.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Haarlem3_NITR202_uid202216/NC_021192.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Haarlem3_NITR202_uid202216/NC_021192.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Haarlem_uid54453/NC_022350.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Haarlem_uid54453/NC_022350.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_Haarlem_uid54453/NC_022350.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_KZN_1435_uid59069/NC_012943.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_KZN_1435_uid59069/NC_012943.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_KZN_1435_uid59069/NC_012943.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_KZN_4207_uid83619/NC_016768.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_KZN_4207_uid83619/NC_016768.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_KZN_4207_uid83619/NC_016768.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_KZN_605_uid54947/NC_018078.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_KZN_605_uid54947/NC_018078.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_KZN_605_uid54947/NC_018078.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_RGTB327_uid157907/NC_017026.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_RGTB327_uid157907/NC_017026.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_RGTB327_uid157907/NC_017026.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_RGTB423_uid162179/NC_017528.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_RGTB423_uid162179/NC_017528.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_RGTB423_uid162179/NC_017528.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_UT205_uid162183/NC_016934.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_UT205_uid162183/NC_016934.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_UT205_uid162183/NC_016934.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_uid185758/NC_020089.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_uid185758/NC_020089.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_tuberculosis_uid185758/NC_020089.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_ulcerans_Agy99_uid62939/NC_005916.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_ulcerans_Agy99_uid62939/NC_005916.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_ulcerans_Agy99_uid62939/NC_005916.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_ulcerans_Agy99_uid62939/NC_008611.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_ulcerans_Agy99_uid62939/NC_008611.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_ulcerans_Agy99_uid62939/NC_008611.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_vanbaalenii_PYR_1_uid58463/NC_008726.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_vanbaalenii_PYR_1_uid58463/NC_008726.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_vanbaalenii_PYR_1_uid58463/NC_008726.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_yongonense_05_1390_uid189649/NC_020275.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_yongonense_05_1390_uid189649/NC_020275.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_yongonense_05_1390_uid189649/NC_020275.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_yongonense_05_1390_uid189649/NC_020276.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_yongonense_05_1390_uid189649/NC_020276.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_yongonense_05_1390_uid189649/NC_020276.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_yongonense_05_1390_uid189649/NC_021715.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_yongonense_05_1390_uid189649/NC_021715.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycobacterium_yongonense_05_1390_uid189649/NC_021715.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_agalactiae_PG2_uid61619/NC_009497.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_agalactiae_PG2_uid61619/NC_009497.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_agalactiae_PG2_uid61619/NC_009497.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_agalactiae_uid46679/NC_013948.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_agalactiae_uid46679/NC_013948.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_agalactiae_uid46679/NC_013948.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_arthritidis_158L3_1_uid58005/NC_011025.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_arthritidis_158L3_1_uid58005/NC_011025.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_arthritidis_158L3_1_uid58005/NC_011025.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_bovis_HB0801_uid168665/NC_018077.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_bovis_HB0801_uid168665/NC_018077.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_bovis_HB0801_uid168665/NC_018077.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_bovis_Hubei_1_uid68691/NC_015725.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_bovis_Hubei_1_uid68691/NC_015725.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_bovis_Hubei_1_uid68691/NC_015725.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_bovis_PG45_uid60859/NC_014760.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_bovis_PG45_uid60859/NC_014760.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_bovis_PG45_uid60859/NC_014760.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_capricolum_ATCC_27343_uid58525/NC_007633.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_capricolum_ATCC_27343_uid58525/NC_007633.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_capricolum_ATCC_27343_uid58525/NC_007633.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_conjunctivae_uid59325/NC_012806.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_conjunctivae_uid59325/NC_012806.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_conjunctivae_uid59325/NC_012806.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_crocodyli_MP145_uid47087/NC_014014.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_crocodyli_MP145_uid47087/NC_014014.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_crocodyli_MP145_uid47087/NC_014014.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_cynos_C142_uid184824/NC_019949.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_cynos_C142_uid184824/NC_019949.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_cynos_C142_uid184824/NC_019949.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_fermentans_JER_uid53543/NC_014552.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_fermentans_JER_uid53543/NC_014552.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_fermentans_JER_uid53543/NC_014552.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_fermentans_M64_uid62099/NC_014921.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_fermentans_M64_uid62099/NC_014921.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_fermentans_M64_uid62099/NC_014921.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_fermentans_PG18_uid197154/NC_021002.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_fermentans_PG18_uid197154/NC_021002.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_fermentans_PG18_uid197154/NC_021002.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_CA06_2006_052_5_2P_uid172630/NC_018412.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_CA06_2006_052_5_2P_uid172630/NC_018412.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_CA06_2006_052_5_2P_uid172630/NC_018412.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_F_uid162001/NC_017503.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_F_uid162001/NC_017503.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_F_uid162001/NC_017503.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC06_2006_080_5_2P_uid172629/NC_018411.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC06_2006_080_5_2P_uid172629/NC_018411.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC06_2006_080_5_2P_uid172629/NC_018411.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC08_2008_031_4_3P_uid172631/NC_018413.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC08_2008_031_4_3P_uid172631/NC_018413.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC08_2008_031_4_3P_uid172631/NC_018413.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC95_13295_2_2P_uid172625/NC_018407.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC95_13295_2_2P_uid172625/NC_018407.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC95_13295_2_2P_uid172625/NC_018407.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC96_1596_4_2P_uid172626/NC_018408.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC96_1596_4_2P_uid172626/NC_018408.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NC96_1596_4_2P_uid172626/NC_018408.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NY01_2001_047_5_1P_uid172627/NC_018409.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NY01_2001_047_5_1P_uid172627/NC_018409.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_NY01_2001_047_5_1P_uid172627/NC_018409.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_R_high__uid161999/NC_017502.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_R_high__uid161999/NC_017502.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_R_high__uid161999/NC_017502.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_R_low__uid57993/NC_004829.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_R_low__uid57993/NC_004829.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_R_low__uid57993/NC_004829.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_S6_uid200523/NC_023030.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_S6_uid200523/NC_023030.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_S6_uid200523/NC_023030.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_VA94_7994_1_7P_uid172624/NC_018406.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_VA94_7994_1_7P_uid172624/NC_018406.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_VA94_7994_1_7P_uid172624/NC_018406.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_WI01_2001_043_13_2P_uid172628/NC_018410.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_WI01_2001_043_13_2P_uid172628/NC_018410.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_gallisepticum_WI01_2001_043_13_2P_uid172628/NC_018410.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_G37_uid57707/NC_000908.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_G37_uid57707/NC_000908.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_G37_uid57707/NC_000908.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M2288_uid173372/NC_018498.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M2288_uid173372/NC_018498.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M2288_uid173372/NC_018498.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M2321_uid173373/NC_018495.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M2321_uid173373/NC_018495.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M2321_uid173373/NC_018495.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M6282_uid173371/NC_018496.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M6282_uid173371/NC_018496.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M6282_uid173371/NC_018496.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M6320_uid173370/NC_018497.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M6320_uid173370/NC_018497.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_genitalium_M6320_uid173370/NC_018497.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_haemocanis_Illinois_uid82367/NC_016638.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_haemocanis_Illinois_uid82367/NC_016638.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_haemocanis_Illinois_uid82367/NC_016638.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_haemofelis_Langford_1_uid62461/NC_014970.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_haemofelis_Langford_1_uid62461/NC_014970.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_haemofelis_Langford_1_uid62461/NC_014970.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_haemofelis_Ohio2_uid162029/NC_017520.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_haemofelis_Ohio2_uid162029/NC_017520.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_haemofelis_Ohio2_uid162029/NC_017520.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hominis_ATCC_23114_uid41875/NC_013511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hominis_ATCC_23114_uid41875/NC_013511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hominis_ATCC_23114_uid41875/NC_013511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_168_L_uid205052/NC_021283.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_168_L_uid205052/NC_021283.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_168_L_uid205052/NC_021283.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_168_uid162053/NC_017509.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_168_uid162053/NC_017509.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_168_uid162053/NC_017509.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_232_uid58205/NC_006360.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_232_uid58205/NC_006360.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_232_uid58205/NC_006360.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_7422_uid212968/NC_021831.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_7422_uid212968/NC_021831.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_7422_uid212968/NC_021831.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_7448_uid58039/NC_007332.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_7448_uid58039/NC_007332.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_7448_uid58039/NC_007332.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_J_uid58059/NC_007295.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_J_uid58059/NC_007295.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyopneumoniae_J_uid58059/NC_007295.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_DBS_1050_uid228933/NC_022807.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_DBS_1050_uid228933/NC_022807.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_DBS_1050_uid228933/NC_022807.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_GDL_1_uid87003/NC_016829.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_GDL_1_uid87003/NC_016829.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_GDL_1_uid87003/NC_016829.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_HUB_1_uid51695/NC_014448.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_HUB_1_uid51695/NC_014448.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_HUB_1_uid51695/NC_014448.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_MCLD_uid162087/NC_017519.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_MCLD_uid162087/NC_017519.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_MCLD_uid162087/NC_017519.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_SK76_uid181997/NC_019552.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_SK76_uid181997/NC_019552.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_hyorhinis_SK76_uid181997/NC_019552.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_leachii_99_014_6_uid162031/NC_017521.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_leachii_99_014_6_uid162031/NC_017521.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_leachii_99_014_6_uid162031/NC_017521.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_leachii_PG50_uid60849/NC_014751.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_leachii_PG50_uid60849/NC_014751.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_leachii_PG50_uid60849/NC_014751.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mobile_163K_uid58077/NC_006908.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mobile_163K_uid58077/NC_006908.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mobile_163K_uid58077/NC_006908.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_SC_Gladysdale_uid197153/NC_021025.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_SC_Gladysdale_uid197153/NC_021025.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_SC_Gladysdale_uid197153/NC_021025.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_SC_PG1_uid58031/NC_005364.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_SC_PG1_uid58031/NC_005364.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_SC_PG1_uid58031/NC_005364.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_capri_LC_95010_uid66189/NC_015407.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_capri_LC_95010_uid66189/NC_015407.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_capri_LC_95010_uid66189/NC_015407.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_capri_LC_95010_uid66189/NC_015431.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_capri_LC_95010_uid66189/NC_015431.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_mycoides_capri_LC_95010_uid66189/NC_015431.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_ovis_Michigan_uid232247/NC_023062.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_ovis_Michigan_uid232247/NC_023062.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_ovis_Michigan_uid232247/NC_023062.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_parvum_Indiana_uid223379/NC_022575.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_parvum_Indiana_uid223379/NC_022575.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_parvum_Indiana_uid223379/NC_022575.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_penetrans_HF_2_uid57729/NC_004432.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_penetrans_HF_2_uid57729/NC_004432.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_penetrans_HF_2_uid57729/NC_004432.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_309_uid85495/NC_016807.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_309_uid85495/NC_016807.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_309_uid85495/NC_016807.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_FH_uid162027/NC_017504.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_FH_uid162027/NC_017504.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_FH_uid162027/NC_017504.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_M129_B7_uid185759/NC_020076.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_M129_B7_uid185759/NC_020076.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_M129_B7_uid185759/NC_020076.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_M129_uid57709/NC_000912.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_M129_uid57709/NC_000912.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pneumoniae_M129_uid57709/NC_000912.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pulmonis_UAB_CTIP_uid61569/NC_002771.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pulmonis_UAB_CTIP_uid61569/NC_002771.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_pulmonis_UAB_CTIP_uid61569/NC_002771.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_putrefaciens_KS1_uid72481/NC_015946.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_putrefaciens_KS1_uid72481/NC_015946.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_putrefaciens_KS1_uid72481/NC_015946.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_putrefaciens_Mput9231_uid198525/NC_021083.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_putrefaciens_Mput9231_uid198525/NC_021083.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_putrefaciens_Mput9231_uid198525/NC_021083.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_suis_Illinois_uid61897/NC_015155.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_suis_Illinois_uid61897/NC_015155.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_suis_Illinois_uid61897/NC_015155.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_suis_KI3806_uid63665/NC_015153.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_suis_KI3806_uid63665/NC_015153.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_suis_KI3806_uid63665/NC_015153.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_synoviae_53_uid58061/NC_007294.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_synoviae_53_uid58061/NC_007294.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_synoviae_53_uid58061/NC_007294.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_wenyonii_Massachusetts_uid170731/NC_018149.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_wenyonii_Massachusetts_uid170731/NC_018149.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Mycoplasma_wenyonii_Massachusetts_uid170731/NC_018149.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Myxococcus_fulvus_HW_1_uid68443/NC_015711.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Myxococcus_fulvus_HW_1_uid68443/NC_015711.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Myxococcus_fulvus_HW_1_uid68443/NC_015711.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Myxococcus_stipitatus_DSM_14675_uid186549/NC_020126.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Myxococcus_stipitatus_DSM_14675_uid186549/NC_020126.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Myxococcus_stipitatus_DSM_14675_uid186549/NC_020126.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Myxococcus_xanthus_DK_1622_uid58003/NC_008095.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Myxococcus_xanthus_DK_1622_uid58003/NC_008095.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Myxococcus_xanthus_DK_1622_uid58003/NC_008095.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nakamurella_multipartita_DSM_44233_uid59221/NC_013235.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nakamurella_multipartita_DSM_44233_uid59221/NC_013235.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nakamurella_multipartita_DSM_44233_uid59221/NC_013235.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natranaerobius_thermophilus_JW_NM_WN_LF_uid59001/NC_010715.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natranaerobius_thermophilus_JW_NM_WN_LF_uid59001/NC_010715.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natranaerobius_thermophilus_JW_NM_WN_LF_uid59001/NC_010715.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natranaerobius_thermophilus_JW_NM_WN_LF_uid59001/NC_010718.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natranaerobius_thermophilus_JW_NM_WN_LF_uid59001/NC_010718.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natranaerobius_thermophilus_JW_NM_WN_LF_uid59001/NC_010718.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natranaerobius_thermophilus_JW_NM_WN_LF_uid59001/NC_010724.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natranaerobius_thermophilus_JW_NM_WN_LF_uid59001/NC_010724.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natranaerobius_thermophilus_JW_NM_WN_LF_uid59001/NC_010724.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natrinema_J7_uid171337/NC_018224.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natrinema_J7_uid171337/NC_018224.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natrinema_J7_uid171337/NC_018224.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natrinema_J7_uid171337/NC_018225.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natrinema_J7_uid171337/NC_018225.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Natrinema_J7_uid171337/NC_018225.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nautilia_profundicola_AmH_uid59345/NC_012115.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nautilia_profundicola_AmH_uid59345/NC_012115.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nautilia_profundicola_AmH_uid59345/NC_012115.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_FA_1090_uid57611/NC_002946.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_FA_1090_uid57611/NC_002946.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_FA_1090_uid57611/NC_002946.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_NCCP11945_uid59191/NC_011034.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_NCCP11945_uid59191/NC_011034.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_NCCP11945_uid59191/NC_011034.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_NCCP11945_uid59191/NC_011035.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_NCCP11945_uid59191/NC_011035.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_NCCP11945_uid59191/NC_011035.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_TCDC_NG08107_uid161097/NC_017510.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_TCDC_NG08107_uid161097/NC_017510.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_TCDC_NG08107_uid161097/NC_017510.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_TCDC_NG08107_uid161097/NC_017511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_TCDC_NG08107_uid161097/NC_017511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_gonorrhoeae_TCDC_NG08107_uid161097/NC_017511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_lactamica_020_06_uid60851/NC_014752.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_lactamica_020_06_uid60851/NC_014752.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_lactamica_020_06_uid60851/NC_014752.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_053442_uid58587/NC_010120.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_053442_uid58587/NC_010120.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_053442_uid58587/NC_010120.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_8013_uid161967/NC_017501.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_8013_uid161967/NC_017501.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_8013_uid161967/NC_017501.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_FAM18_uid57825/NC_008767.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_FAM18_uid57825/NC_008767.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_FAM18_uid57825/NC_008767.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_G2136_uid162085/NC_017513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_G2136_uid162085/NC_017513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_G2136_uid162085/NC_017513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_H44_76_uid162083/NC_017516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_H44_76_uid162083/NC_017516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_H44_76_uid162083/NC_017516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_M01_240149_uid162079/NC_017514.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_M01_240149_uid162079/NC_017514.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_M01_240149_uid162079/NC_017514.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_M01_240355_uid162075/NC_017517.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_M01_240355_uid162075/NC_017517.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_M01_240355_uid162075/NC_017517.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_M04_240196_uid162081/NC_017515.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_M04_240196_uid162081/NC_017515.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_M04_240196_uid162081/NC_017515.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_MC58_uid57817/NC_003112.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_MC58_uid57817/NC_003112.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_MC58_uid57817/NC_003112.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_NZ_05_33_uid162077/NC_017518.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_NZ_05_33_uid162077/NC_017518.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_NZ_05_33_uid162077/NC_017518.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_WUE_2594_uid162093/NC_017512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_WUE_2594_uid162093/NC_017512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_WUE_2594_uid162093/NC_017512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_Z2491_uid57819/NC_003116.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_Z2491_uid57819/NC_003116.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_Z2491_uid57819/NC_003116.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_alpha14_uid61649/NC_013016.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_alpha14_uid61649/NC_013016.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_alpha14_uid61649/NC_013016.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_alpha710_uid161971/NC_017505.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_alpha710_uid161971/NC_017505.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neisseria_meningitidis_alpha710_uid161971/NC_017505.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neorickettsia_risticii_Illinois_uid58889/NC_013009.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neorickettsia_risticii_Illinois_uid58889/NC_013009.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neorickettsia_risticii_Illinois_uid58889/NC_013009.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neorickettsia_sennetsu_Miyayama_uid57965/NC_007798.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neorickettsia_sennetsu_Miyayama_uid57965/NC_007798.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Neorickettsia_sennetsu_Miyayama_uid57965/NC_007798.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Niastella_koreensis_GR20_10_uid83125/NC_016609.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Niastella_koreensis_GR20_10_uid83125/NC_016609.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Niastella_koreensis_GR20_10_uid83125/NC_016609.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitratifractor_salsuginis_DSM_16511_uid62183/NC_014935.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitratifractor_salsuginis_DSM_16511_uid62183/NC_014935.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitratifractor_salsuginis_DSM_16511_uid62183/NC_014935.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitratiruptor_SB155_2_uid58861/NC_009662.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitratiruptor_SB155_2_uid58861/NC_009662.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitratiruptor_SB155_2_uid58861/NC_009662.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007959.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007959.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007959.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007960.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007960.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007960.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007961.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007961.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007961.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007964.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007964.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_hamburgensis_X14_uid58293/NC_007964.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_winogradskyi_Nb_255_uid58295/NC_007406.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_winogradskyi_Nb_255_uid58295/NC_007406.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrobacter_winogradskyi_Nb_255_uid58295/NC_007406.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_halophilus_Nc4_uid46803/NC_013958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_halophilus_Nc4_uid46803/NC_013958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_halophilus_Nc4_uid46803/NC_013958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_halophilus_Nc4_uid46803/NC_013960.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_halophilus_Nc4_uid46803/NC_013960.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_halophilus_Nc4_uid46803/NC_013960.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_oceani_ATCC_19707_uid58403/NC_007483.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_oceani_ATCC_19707_uid58403/NC_007483.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_oceani_ATCC_19707_uid58403/NC_007483.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_oceani_ATCC_19707_uid58403/NC_007484.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_oceani_ATCC_19707_uid58403/NC_007484.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_oceani_ATCC_19707_uid58403/NC_007484.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_watsonii_C_113_uid50331/NC_014315.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_watsonii_C_113_uid50331/NC_014315.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_watsonii_C_113_uid50331/NC_014315.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_watsonii_C_113_uid50331/NC_014316.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_watsonii_C_113_uid50331/NC_014316.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_watsonii_C_113_uid50331/NC_014316.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_watsonii_C_113_uid50331/NC_014317.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_watsonii_C_113_uid50331/NC_014317.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosococcus_watsonii_C_113_uid50331/NC_014317.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_AL212_uid55727/NC_015221.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_AL212_uid55727/NC_015221.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_AL212_uid55727/NC_015221.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_AL212_uid55727/NC_015222.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_AL212_uid55727/NC_015222.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_AL212_uid55727/NC_015222.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_AL212_uid55727/NC_015223.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_AL212_uid55727/NC_015223.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_AL212_uid55727/NC_015223.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_Is79A3_uid68745/NC_015731.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_Is79A3_uid68745/NC_015731.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_Is79A3_uid68745/NC_015731.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_europaea_ATCC_19718_uid57647/NC_004757.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_europaea_ATCC_19718_uid57647/NC_004757.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_europaea_ATCC_19718_uid57647/NC_004757.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_eutropha_C91_uid58363/NC_008341.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_eutropha_C91_uid58363/NC_008341.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_eutropha_C91_uid58363/NC_008341.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_eutropha_C91_uid58363/NC_008342.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_eutropha_C91_uid58363/NC_008342.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_eutropha_C91_uid58363/NC_008342.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_eutropha_C91_uid58363/NC_008344.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_eutropha_C91_uid58363/NC_008344.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosomonas_eutropha_C91_uid58363/NC_008344.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007614.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007614.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007614.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007615.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007615.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007615.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007616.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007616.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007616.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007617.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007617.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nitrosospira_multiformis_ATCC_25196_uid58361/NC_007617.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_brasiliensis_ATCC_700358_uid86913/NC_018681.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_brasiliensis_ATCC_700358_uid86913/NC_018681.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_brasiliensis_ATCC_700358_uid86913/NC_018681.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_cyriacigeorgica_GUH_2_uid89395/NC_016887.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_cyriacigeorgica_GUH_2_uid89395/NC_016887.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_cyriacigeorgica_GUH_2_uid89395/NC_016887.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_farcinica_IFM_10152_uid58203/NC_006361.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_farcinica_IFM_10152_uid58203/NC_006361.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_farcinica_IFM_10152_uid58203/NC_006361.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_farcinica_IFM_10152_uid58203/NC_006362.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_farcinica_IFM_10152_uid58203/NC_006362.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_farcinica_IFM_10152_uid58203/NC_006362.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_farcinica_IFM_10152_uid58203/NC_006363.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_farcinica_IFM_10152_uid58203/NC_006363.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardia_farcinica_IFM_10152_uid58203/NC_006363.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardioides_JS614_uid58149/NC_008697.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardioides_JS614_uid58149/NC_008697.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardioides_JS614_uid58149/NC_008697.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardioides_JS614_uid58149/NC_008699.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardioides_JS614_uid58149/NC_008699.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardioides_JS614_uid58149/NC_008699.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardiopsis_alba_ATCC_BAA_2165_uid174334/NC_018524.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardiopsis_alba_ATCC_BAA_2165_uid174334/NC_018524.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardiopsis_alba_ATCC_BAA_2165_uid174334/NC_018524.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardiopsis_dassonvillei_DSM_43111_uid49483/NC_014210.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardiopsis_dassonvillei_DSM_43111_uid49483/NC_014210.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardiopsis_dassonvillei_DSM_43111_uid49483/NC_014210.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardiopsis_dassonvillei_DSM_43111_uid49483/NC_014211.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardiopsis_dassonvillei_DSM_43111_uid49483/NC_014211.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nocardiopsis_dassonvillei_DSM_43111_uid49483/NC_014211.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7107_uid182932/NC_019676.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7107_uid182932/NC_019676.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7107_uid182932/NC_019676.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003240.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003240.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003240.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003241.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003241.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003241.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003267.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003267.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003267.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003270.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003270.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003270.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003272.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003272.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003272.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003273.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003273.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003273.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003276.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003276.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7120_uid57803/NC_003276.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7524_uid182933/NC_019677.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7524_uid182933/NC_019677.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7524_uid182933/NC_019677.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7524_uid182933/NC_019684.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7524_uid182933/NC_019684.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7524_uid182933/NC_019684.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7524_uid182933/NC_019685.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7524_uid182933/NC_019685.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_PCC_7524_uid182933/NC_019685.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010628.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010628.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010628.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010629.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010629.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010629.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010630.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010630.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010630.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010631.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010631.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010631.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010632.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010632.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010632.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010633.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010633.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Nostoc_punctiforme_PCC_73102_uid57767/NC_010633.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015579.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015579.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015579.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015580.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015580.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015580.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015582.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015582.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015582.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015583.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015583.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_PP1Y_uid67383/NC_015583.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_aromaticivorans_DSM_12444_uid57747/NC_007794.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_aromaticivorans_DSM_12444_uid57747/NC_007794.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_aromaticivorans_DSM_12444_uid57747/NC_007794.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_aromaticivorans_DSM_12444_uid57747/NC_009426.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_aromaticivorans_DSM_12444_uid57747/NC_009426.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_aromaticivorans_DSM_12444_uid57747/NC_009426.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_aromaticivorans_DSM_12444_uid57747/NC_009427.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_aromaticivorans_DSM_12444_uid57747/NC_009427.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Novosphingobium_aromaticivorans_DSM_12444_uid57747/NC_009427.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanimonas_GK1_uid81627/NC_016745.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanimonas_GK1_uid81627/NC_016745.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanimonas_GK1_uid81627/NC_016745.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanimonas_GK1_uid81627/NC_016746.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanimonas_GK1_uid81627/NC_016746.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanimonas_GK1_uid81627/NC_016746.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanimonas_GK1_uid81627/NC_016747.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanimonas_GK1_uid81627/NC_016747.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanimonas_GK1_uid81627/NC_016747.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanithermus_profundus_DSM_14977_uid60855/NC_014753.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanithermus_profundus_DSM_14977_uid60855/NC_014753.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanithermus_profundus_DSM_14977_uid60855/NC_014753.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanithermus_profundus_DSM_14977_uid60855/NC_014761.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanithermus_profundus_DSM_14977_uid60855/NC_014761.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanithermus_profundus_DSM_14977_uid60855/NC_014761.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanobacillus_iheyensis_HTE831_uid57867/NC_004193.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanobacillus_iheyensis_HTE831_uid57867/NC_004193.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oceanobacillus_iheyensis_HTE831_uid57867/NC_004193.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009667.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009667.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009667.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009668.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009668.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009668.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009669.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009669.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009669.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009670.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009670.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009670.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009671.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009671.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009671.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009672.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009672.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ochrobactrum_anthropi_ATCC_49188_uid58921/NC_009672.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_antarcticus_307_uid54701/NC_020907.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_antarcticus_307_uid54701/NC_020907.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_antarcticus_307_uid54701/NC_020907.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_antarcticus_307_uid54701/NC_020911.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_antarcticus_307_uid54701/NC_020911.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_antarcticus_307_uid54701/NC_020911.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_arcticus_238_uid54699/NC_020908.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_arcticus_238_uid54699/NC_020908.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_arcticus_238_uid54699/NC_020908.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_arcticus_238_uid54699/NC_020909.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_arcticus_238_uid54699/NC_020909.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_arcticus_238_uid54699/NC_020909.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_arcticus_238_uid54699/NC_020910.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_arcticus_238_uid54699/NC_020910.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Octadecabacter_arcticus_238_uid54699/NC_020910.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Odoribacter_splanchnicus_DSM_20712_uid63397/NC_015160.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Odoribacter_splanchnicus_DSM_20712_uid63397/NC_015160.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Odoribacter_splanchnicus_DSM_20712_uid63397/NC_015160.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oenococcus_oeni_PSU_1_uid59417/NC_008528.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oenococcus_oeni_PSU_1_uid59417/NC_008528.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oenococcus_oeni_PSU_1_uid59417/NC_008528.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM4_uid162135/NC_017536.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM4_uid162135/NC_017536.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM4_uid162135/NC_017536.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM4_uid162135/NC_017538.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM4_uid162135/NC_017538.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM4_uid162135/NC_017538.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM4_uid162135/NC_017539.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM4_uid162135/NC_017539.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM4_uid162135/NC_017539.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid59155/NC_011386.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid59155/NC_011386.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid59155/NC_011386.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid72795/NC_015684.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid72795/NC_015684.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid72795/NC_015684.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid72795/NC_015685.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid72795/NC_015685.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid72795/NC_015685.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid72795/NC_015689.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid72795/NC_015689.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oligotropha_carboxidovorans_OM5_uid72795/NC_015689.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Olsenella_uli_DSM_7084_uid51367/NC_014363.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Olsenella_uli_DSM_7084_uid51367/NC_014363.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Olsenella_uli_DSM_7084_uid51367/NC_014363.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Onion_yellows_phytoplasma_OY_M_uid58015/NC_005303.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Onion_yellows_phytoplasma_OY_M_uid58015/NC_005303.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Onion_yellows_phytoplasma_OY_M_uid58015/NC_005303.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Opitutus_terrae_PB90_1_uid58965/NC_010571.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Opitutus_terrae_PB90_1_uid58965/NC_010571.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Opitutus_terrae_PB90_1_uid58965/NC_010571.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Orientia_tsutsugamushi_Boryong_uid61621/NC_009488.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Orientia_tsutsugamushi_Boryong_uid61621/NC_009488.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Orientia_tsutsugamushi_Boryong_uid61621/NC_009488.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Orientia_tsutsugamushi_Ikeda_uid58869/NC_010793.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Orientia_tsutsugamushi_Ikeda_uid58869/NC_010793.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Orientia_tsutsugamushi_Ikeda_uid58869/NC_010793.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ornithobacterium_rhinotracheale_DSM_15997_uid168256/NC_018016.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ornithobacterium_rhinotracheale_DSM_15997_uid168256/NC_018016.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ornithobacterium_rhinotracheale_DSM_15997_uid168256/NC_018016.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_acuminata_PCC_6304_uid183003/NC_019693.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_acuminata_PCC_6304_uid183003/NC_019693.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_acuminata_PCC_6304_uid183003/NC_019693.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_acuminata_PCC_6304_uid183003/NC_019694.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_acuminata_PCC_6304_uid183003/NC_019694.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_acuminata_PCC_6304_uid183003/NC_019694.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_acuminata_PCC_6304_uid183003/NC_019700.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_acuminata_PCC_6304_uid183003/NC_019700.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_acuminata_PCC_6304_uid183003/NC_019700.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019729.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019729.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019729.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019730.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019730.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019730.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019731.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019731.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019731.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019732.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019732.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019732.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019763.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019763.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019763.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019764.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019764.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillatoria_nigro_viridis_PCC_7112_uid183110/NC_019764.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillibacter_valericigenes_Sjm18_20_uid73895/NC_016046.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillibacter_valericigenes_Sjm18_20_uid73895/NC_016046.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillibacter_valericigenes_Sjm18_20_uid73895/NC_016046.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillibacter_valericigenes_Sjm18_20_uid73895/NC_016048.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillibacter_valericigenes_Sjm18_20_uid73895/NC_016048.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Oscillibacter_valericigenes_Sjm18_20_uid73895/NC_016048.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Owenweeksia_hongkongensis_DSM_17368_uid82951/NC_016599.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Owenweeksia_hongkongensis_DSM_17368_uid82951/NC_016599.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Owenweeksia_hongkongensis_DSM_17368_uid82951/NC_016599.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_JDR_2_uid59021/NC_012914.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_JDR_2_uid59021/NC_012914.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_JDR_2_uid59021/NC_012914.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_Y412MC10_uid41127/NC_013406.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_Y412MC10_uid41127/NC_013406.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_Y412MC10_uid41127/NC_013406.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_larvae_04_309_uid232355/NC_023134.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_larvae_04_309_uid232355/NC_023134.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_larvae_04_309_uid232355/NC_023134.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_larvae_04_309_uid232355/NC_023147.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_larvae_04_309_uid232355/NC_023147.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_larvae_04_309_uid232355/NC_023147.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_mucilaginosus_3016_uid89377/NC_016935.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_mucilaginosus_3016_uid89377/NC_016935.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_mucilaginosus_3016_uid89377/NC_016935.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_mucilaginosus_K02_uid162117/NC_017672.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_mucilaginosus_K02_uid162117/NC_017672.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_mucilaginosus_K02_uid162117/NC_017672.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_mucilaginosus_KNP414_uid68311/NC_015690.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_mucilaginosus_KNP414_uid68311/NC_015690.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_mucilaginosus_KNP414_uid68311/NC_015690.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_CR1_uid231659/NC_023037.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_CR1_uid231659/NC_023037.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_CR1_uid231659/NC_023037.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_E681_uid53477/NC_014483.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_E681_uid53477/NC_014483.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_E681_uid53477/NC_014483.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_M1_uid162159/NC_017542.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_M1_uid162159/NC_017542.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_M1_uid162159/NC_017542.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_M1_uid162159/NC_017543.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_M1_uid162159/NC_017543.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_M1_uid162159/NC_017543.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_SC2_uid59583/NC_014622.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_SC2_uid59583/NC_014622.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_SC2_uid59583/NC_014622.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_SC2_uid59583/NC_014628.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_SC2_uid59583/NC_014628.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_polymyxa_SC2_uid59583/NC_014628.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_terrae_HPL_003_uid82371/NC_016641.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_terrae_HPL_003_uid82371/NC_016641.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paenibacillus_terrae_HPL_003_uid82371/NC_016641.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paludibacter_propionicigenes_WB4_uid60725/NC_014734.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paludibacter_propionicigenes_WB4_uid60725/NC_014734.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paludibacter_propionicigenes_WB4_uid60725/NC_014734.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pandoraea_RB_44_uid231151/NC_023018.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pandoraea_RB_44_uid231151/NC_023018.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pandoraea_RB_44_uid231151/NC_023018.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pandoraea_pnomenusa_3kgm_uid229878/NC_022904.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pandoraea_pnomenusa_3kgm_uid229878/NC_022904.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pandoraea_pnomenusa_3kgm_uid229878/NC_022904.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014837.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014837.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014837.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014838.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014838.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014838.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014839.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014839.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014839.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014840.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014840.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014840.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014841.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014841.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014841.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014842.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014842.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_At_9b_uid55845/NC_014842.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_AJ13355_uid162073/NC_017531.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_AJ13355_uid162073/NC_017531.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_AJ13355_uid162073/NC_017531.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_AJ13355_uid162073/NC_017533.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_AJ13355_uid162073/NC_017533.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_AJ13355_uid162073/NC_017533.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_LMG_20103_uid46807/NC_013956.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_LMG_20103_uid46807/NC_013956.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_LMG_20103_uid46807/NC_013956.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_PA13_uid162181/NC_017553.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_PA13_uid162181/NC_017553.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_PA13_uid162181/NC_017553.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_PA13_uid162181/NC_017554.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_PA13_uid162181/NC_017554.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_PA13_uid162181/NC_017554.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_uid86861/NC_016816.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_uid86861/NC_016816.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_uid86861/NC_016816.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_uid86861/NC_016817.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_uid86861/NC_016817.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_ananatis_uid86861/NC_016817.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014258.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014258.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014258.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014561.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014561.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014561.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014562.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014562.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014562.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014563.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014563.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pantoea_vagans_C9_1_uid49871/NC_014563.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parabacteroides_distasonis_ATCC_8503_uid58301/NC_009615.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parabacteroides_distasonis_ATCC_8503_uid58301/NC_009615.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parabacteroides_distasonis_ATCC_8503_uid58301/NC_009615.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parachlamydia_acanthamoebae_UV7_uid68335/NC_015702.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parachlamydia_acanthamoebae_UV7_uid68335/NC_015702.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parachlamydia_acanthamoebae_UV7_uid68335/NC_015702.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022041.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022041.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022041.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022042.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022042.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022042.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022043.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022043.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022043.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022044.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022044.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022044.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022049.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022049.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022049.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022050.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022050.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_aminophilus_JCM_7686_uid214795/NC_022050.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_denitrificans_PD1222_uid58187/NC_008686.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_denitrificans_PD1222_uid58187/NC_008686.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_denitrificans_PD1222_uid58187/NC_008686.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_denitrificans_PD1222_uid58187/NC_008687.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_denitrificans_PD1222_uid58187/NC_008687.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_denitrificans_PD1222_uid58187/NC_008687.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_denitrificans_PD1222_uid58187/NC_008688.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_denitrificans_PD1222_uid58187/NC_008688.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Paracoccus_denitrificans_PD1222_uid58187/NC_008688.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parvibaculum_lavamentivorans_DS_1_uid58739/NC_009719.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parvibaculum_lavamentivorans_DS_1_uid58739/NC_009719.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parvibaculum_lavamentivorans_DS_1_uid58739/NC_009719.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parvularcula_bermudensis_HTCC2503_uid51641/NC_014414.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parvularcula_bermudensis_HTCC2503_uid51641/NC_014414.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Parvularcula_bermudensis_HTCC2503_uid51641/NC_014414.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_3480_uid161955/NC_017764.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_3480_uid161955/NC_017764.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_3480_uid161955/NC_017764.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_36950_uid86887/NC_016808.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_36950_uid86887/NC_016808.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_36950_uid86887/NC_016808.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_HN06_uid156881/NC_017027.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_HN06_uid156881/NC_017027.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_HN06_uid156881/NC_017027.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_HN06_uid156881/NC_017035.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_HN06_uid156881/NC_017035.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_HN06_uid156881/NC_017035.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_Pm70_uid57627/NC_002663.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_Pm70_uid57627/NC_002663.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pasteurella_multocida_Pm70_uid57627/NC_002663.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_SCC3193_uid193707/NC_017845.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_SCC3193_uid193707/NC_017845.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_SCC3193_uid193707/NC_017845.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_atrosepticum_SCRI1043_uid57957/NC_004547.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_atrosepticum_SCRI1043_uid57957/NC_004547.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_atrosepticum_SCRI1043_uid57957/NC_004547.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_carotovorum_PC1_uid59295/NC_012917.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_carotovorum_PC1_uid59295/NC_012917.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_carotovorum_PC1_uid59295/NC_012917.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_carotovorum_PCC21_uid174335/NC_018525.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_carotovorum_PCC21_uid174335/NC_018525.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_carotovorum_PCC21_uid174335/NC_018525.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_wasabiae_WPP163_uid41297/NC_013421.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_wasabiae_WPP163_uid41297/NC_013421.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pectobacterium_wasabiae_WPP163_uid41297/NC_013421.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016605.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016605.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016605.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016606.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016606.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016606.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016607.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016607.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016607.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016608.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016608.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016608.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016635.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016635.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016635.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016636.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016636.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_016636.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_017017.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_017017.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_017017.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_017018.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_017018.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_017018.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_017019.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_017019.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_claussenii_ATCC_BAA_344_uid81103/NC_017019.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_pentosaceus_ATCC_25745_uid57981/NC_008525.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_pentosaceus_ATCC_25745_uid57981/NC_008525.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_pentosaceus_ATCC_25745_uid57981/NC_008525.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_pentosaceus_SL4_uid227215/NC_022780.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_pentosaceus_SL4_uid227215/NC_022780.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pediococcus_pentosaceus_SL4_uid227215/NC_022780.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pedobacter_heparinus_DSM_2366_uid59111/NC_013061.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pedobacter_heparinus_DSM_2366_uid59111/NC_013061.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pedobacter_heparinus_DSM_2366_uid59111/NC_013061.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pedobacter_saltans_DSM_12145_uid61349/NC_015177.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pedobacter_saltans_DSM_12145_uid61349/NC_015177.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pedobacter_saltans_DSM_12145_uid61349/NC_015177.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelagibacterium_halotolerans_B2_uid74393/NC_016078.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelagibacterium_halotolerans_B2_uid74393/NC_016078.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelagibacterium_halotolerans_B2_uid74393/NC_016078.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelagibacterium_halotolerans_B2_uid74393/NC_016079.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelagibacterium_halotolerans_B2_uid74393/NC_016079.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelagibacterium_halotolerans_B2_uid74393/NC_016079.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_carbinolicus_DSM_2380_uid58241/NC_007498.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_carbinolicus_DSM_2380_uid58241/NC_007498.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_carbinolicus_DSM_2380_uid58241/NC_007498.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_propionicus_DSM_2379_uid58255/NC_008607.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_propionicus_DSM_2379_uid58255/NC_008607.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_propionicus_DSM_2379_uid58255/NC_008607.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_propionicus_DSM_2379_uid58255/NC_008608.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_propionicus_DSM_2379_uid58255/NC_008608.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_propionicus_DSM_2379_uid58255/NC_008608.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_propionicus_DSM_2379_uid58255/NC_008609.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_propionicus_DSM_2379_uid58255/NC_008609.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelobacter_propionicus_DSM_2379_uid58255/NC_008609.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelodictyon_phaeoclathratiforme_BU_1_uid58173/NC_011060.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelodictyon_phaeoclathratiforme_BU_1_uid58173/NC_011060.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelodictyon_phaeoclathratiforme_BU_1_uid58173/NC_011060.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelotomaculum_thermopropionicum_SI_uid58877/NC_009454.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelotomaculum_thermopropionicum_SI_uid58877/NC_009454.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pelotomaculum_thermopropionicum_SI_uid58877/NC_009454.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Persicivirga_dokdonensis_DSW_6_uid186842/NC_020156.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Persicivirga_dokdonensis_DSW_6_uid186842/NC_020156.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Persicivirga_dokdonensis_DSW_6_uid186842/NC_020156.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Petrotoga_mobilis_SJ95_uid58747/NC_010003.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Petrotoga_mobilis_SJ95_uid58747/NC_010003.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Petrotoga_mobilis_SJ95_uid58747/NC_010003.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018287.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018287.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018287.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018288.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018288.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018288.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018290.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018290.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018290.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018291.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018291.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_17395_uid54717/NC_018291.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023137.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023137.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023137.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023138.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023138.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023138.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023139.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023139.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023139.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023140.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023140.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023140.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023141.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023141.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023141.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023142.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023142.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023142.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023143.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023143.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023143.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023148.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023148.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_DSM_26640_uid232357/NC_023148.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018286.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018286.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018286.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018421.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018421.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018421.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018422.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018422.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018422.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018423.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018423.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phaeobacter_gallaeciensis_uid54715/NC_018423.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phenylobacterium_zucineum_HLK1_uid58959/NC_011143.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phenylobacterium_zucineum_HLK1_uid58959/NC_011143.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phenylobacterium_zucineum_HLK1_uid58959/NC_011143.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phenylobacterium_zucineum_HLK1_uid58959/NC_011144.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phenylobacterium_zucineum_HLK1_uid58959/NC_011144.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phenylobacterium_zucineum_HLK1_uid58959/NC_011144.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photobacterium_profundum_SS9_uid62923/NC_005871.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photobacterium_profundum_SS9_uid62923/NC_005871.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photobacterium_profundum_SS9_uid62923/NC_005871.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photobacterium_profundum_SS9_uid62923/NC_006370.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photobacterium_profundum_SS9_uid62923/NC_006370.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photobacterium_profundum_SS9_uid62923/NC_006370.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photobacterium_profundum_SS9_uid62923/NC_006371.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photobacterium_profundum_SS9_uid62923/NC_006371.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photobacterium_profundum_SS9_uid62923/NC_006371.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photorhabdus_asymbiotica_ATCC_43949_uid59243/NC_012961.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photorhabdus_asymbiotica_ATCC_43949_uid59243/NC_012961.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photorhabdus_asymbiotica_ATCC_43949_uid59243/NC_012961.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photorhabdus_asymbiotica_ATCC_43949_uid59243/NC_012962.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photorhabdus_asymbiotica_ATCC_43949_uid59243/NC_012962.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photorhabdus_asymbiotica_ATCC_43949_uid59243/NC_012962.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photorhabdus_luminescens_laumondii_TTO1_uid61593/NC_005126.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photorhabdus_luminescens_laumondii_TTO1_uid61593/NC_005126.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Photorhabdus_luminescens_laumondii_TTO1_uid61593/NC_005126.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phycisphaera_mikurensis_NBRC_102666_uid157331/NC_017080.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phycisphaera_mikurensis_NBRC_102666_uid157331/NC_017080.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phycisphaera_mikurensis_NBRC_102666_uid157331/NC_017080.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phycisphaera_mikurensis_NBRC_102666_uid157331/NC_017081.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phycisphaera_mikurensis_NBRC_102666_uid157331/NC_017081.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Phycisphaera_mikurensis_NBRC_102666_uid157331/NC_017081.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pirellula_staleyi_DSM_6068_uid43209/NC_013720.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pirellula_staleyi_DSM_6068_uid43209/NC_013720.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pirellula_staleyi_DSM_6068_uid43209/NC_013720.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Planctomyces_brasiliensis_DSM_5305_uid60583/NC_015174.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Planctomyces_brasiliensis_DSM_5305_uid60583/NC_015174.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Planctomyces_brasiliensis_DSM_5305_uid60583/NC_015174.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Planctomyces_limnophilus_DSM_3776_uid48643/NC_014148.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Planctomyces_limnophilus_DSM_3776_uid48643/NC_014148.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Planctomyces_limnophilus_DSM_3776_uid48643/NC_014148.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Planctomyces_limnophilus_DSM_3776_uid48643/NC_014149.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Planctomyces_limnophilus_DSM_3776_uid48643/NC_014149.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Planctomyces_limnophilus_DSM_3776_uid48643/NC_014149.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Plautia_stali_symbiont_uid65033/NC_022533.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Plautia_stali_symbiont_uid65033/NC_022533.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Plautia_stali_symbiont_uid65033/NC_022533.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Plautia_stali_symbiont_uid65033/NC_022534.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Plautia_stali_symbiont_uid65033/NC_022534.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Plautia_stali_symbiont_uid65033/NC_022534.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Plautia_stali_symbiont_uid65033/NC_022546.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Plautia_stali_symbiont_uid65033/NC_022546.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Plautia_stali_symbiont_uid65033/NC_022546.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pleurocapsa_PCC_7327_uid183006/NC_019689.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pleurocapsa_PCC_7327_uid183006/NC_019689.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pleurocapsa_PCC_7327_uid183006/NC_019689.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaribacter_MED152_uid54207/NC_020830.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaribacter_MED152_uid54207/NC_020830.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaribacter_MED152_uid54207/NC_020830.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_JS666_uid58207/NC_007948.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_JS666_uid58207/NC_007948.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_JS666_uid58207/NC_007948.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_JS666_uid58207/NC_007949.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_JS666_uid58207/NC_007949.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_JS666_uid58207/NC_007949.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_JS666_uid58207/NC_007950.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_JS666_uid58207/NC_007950.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_JS666_uid58207/NC_007950.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008757.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008757.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008757.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008758.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008758.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008758.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008759.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008759.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008759.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008760.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008760.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008760.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008761.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008761.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008761.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008762.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008762.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008762.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008763.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008763.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008763.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008764.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008764.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008764.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008781.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008781.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polaromonas_naphthalenivorans_CJ2_uid58273/NC_008781.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polymorphum_gilvum_SL003B_26A1_uid65447/NC_015258.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polymorphum_gilvum_SL003B_26A1_uid65447/NC_015258.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polymorphum_gilvum_SL003B_26A1_uid65447/NC_015258.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polymorphum_gilvum_SL003B_26A1_uid65447/NC_015259.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polymorphum_gilvum_SL003B_26A1_uid65447/NC_015259.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polymorphum_gilvum_SL003B_26A1_uid65447/NC_015259.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polynucleobacter_necessarius_STIR1_uid58967/NC_010531.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polynucleobacter_necessarius_STIR1_uid58967/NC_010531.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polynucleobacter_necessarius_STIR1_uid58967/NC_010531.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polynucleobacter_necessarius_asymbioticus_QLW_P1DMWA_1_uid58611/NC_009379.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polynucleobacter_necessarius_asymbioticus_QLW_P1DMWA_1_uid58611/NC_009379.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Polynucleobacter_necessarius_asymbioticus_QLW_P1DMWA_1_uid58611/NC_009379.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_asaccharolytica_DSM_20707_uid66603/NC_015501.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_asaccharolytica_DSM_20707_uid66603/NC_015501.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_asaccharolytica_DSM_20707_uid66603/NC_015501.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_gingivalis_ATCC_33277_uid58879/NC_010729.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_gingivalis_ATCC_33277_uid58879/NC_010729.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_gingivalis_ATCC_33277_uid58879/NC_010729.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_gingivalis_TDC60_uid67407/NC_015571.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_gingivalis_TDC60_uid67407/NC_015571.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_gingivalis_TDC60_uid67407/NC_015571.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_gingivalis_W83_uid57641/NC_002950.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_gingivalis_W83_uid57641/NC_002950.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Porphyromonas_gingivalis_W83_uid57641/NC_002950.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019960.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019960.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019960.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019961.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019961.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019961.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019968.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019968.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019968.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019969.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019969.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_dentalis_DSM_3688_uid184818/NC_019969.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_denticola_F0289_uid65091/NC_015311.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_denticola_F0289_uid65091/NC_015311.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_denticola_F0289_uid65091/NC_015311.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_intermedia_17_uid163151/NC_017860.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_intermedia_17_uid163151/NC_017860.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_intermedia_17_uid163151/NC_017860.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_intermedia_17_uid163151/NC_017861.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_intermedia_17_uid163151/NC_017861.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_intermedia_17_uid163151/NC_017861.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_melaninogenica_ATCC_25845_uid51377/NC_014370.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_melaninogenica_ATCC_25845_uid51377/NC_014370.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_melaninogenica_ATCC_25845_uid51377/NC_014370.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_melaninogenica_ATCC_25845_uid51377/NC_014371.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_melaninogenica_ATCC_25845_uid51377/NC_014371.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_melaninogenica_ATCC_25845_uid51377/NC_014371.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_oral_taxon_299_F0039_uid45899/NC_022111.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_oral_taxon_299_F0039_uid45899/NC_022111.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_oral_taxon_299_F0039_uid45899/NC_022111.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_oral_taxon_299_F0039_uid45899/NC_022124.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_oral_taxon_299_F0039_uid45899/NC_022124.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_oral_taxon_299_F0039_uid45899/NC_022124.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_ruminicola_23_uid47507/NC_014033.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_ruminicola_23_uid47507/NC_014033.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prevotella_ruminicola_23_uid47507/NC_014033.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_AS9601_uid58307/NC_008816.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_AS9601_uid58307/NC_008816.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_AS9601_uid58307/NC_008816.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_CCMP1375_uid57995/NC_005042.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_CCMP1375_uid57995/NC_005042.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_CCMP1375_uid57995/NC_005042.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9211_uid58309/NC_009976.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9211_uid58309/NC_009976.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9211_uid58309/NC_009976.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9215_uid58819/NC_009840.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9215_uid58819/NC_009840.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9215_uid58819/NC_009840.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9301_uid58437/NC_009091.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9301_uid58437/NC_009091.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9301_uid58437/NC_009091.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9303_uid58305/NC_008820.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9303_uid58305/NC_008820.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9303_uid58305/NC_008820.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9312_uid58357/NC_007577.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9312_uid58357/NC_007577.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9312_uid58357/NC_007577.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9313_uid57773/NC_005071.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9313_uid57773/NC_005071.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9313_uid57773/NC_005071.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9515_uid58313/NC_008817.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9515_uid58313/NC_008817.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_MIT_9515_uid58313/NC_008817.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_NATL1A_uid58423/NC_008819.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_NATL1A_uid58423/NC_008819.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_NATL1A_uid58423/NC_008819.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_NATL2A_uid58359/NC_007335.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_NATL2A_uid58359/NC_007335.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_NATL2A_uid58359/NC_007335.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_pastoris_CCMP1986_uid57761/NC_005072.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_pastoris_CCMP1986_uid57761/NC_005072.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prochlorococcus_marinus_pastoris_CCMP1986_uid57761/NC_005072.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acidipropionici_ATCC_4875_uid179069/NC_019395.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acidipropionici_ATCC_4875_uid179069/NC_019395.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acidipropionici_ATCC_4875_uid179069/NC_019395.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_266_uid162059/NC_017534.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_266_uid162059/NC_017534.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_266_uid162059/NC_017534.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_6609_uid162137/NC_017535.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_6609_uid162137/NC_017535.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_6609_uid162137/NC_017535.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_ATCC_11828_uid162177/NC_017550.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_ATCC_11828_uid162177/NC_017550.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_ATCC_11828_uid162177/NC_017550.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_C1_uid176501/NC_018707.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_C1_uid176501/NC_018707.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_C1_uid176501/NC_018707.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_HL096PA1_uid198524/NC_021085.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_HL096PA1_uid198524/NC_021085.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_HL096PA1_uid198524/NC_021085.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_HL096PA1_uid198524/NC_021086.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_HL096PA1_uid198524/NC_021086.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_HL096PA1_uid198524/NC_021086.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_KPA171202_uid58101/NC_006085.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_KPA171202_uid58101/NC_006085.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_KPA171202_uid58101/NC_006085.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_SK137_uid48071/NC_014039.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_SK137_uid48071/NC_014039.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_SK137_uid48071/NC_014039.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_TypeIA2_P_acn17_uid80735/NC_016512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_TypeIA2_P_acn17_uid80735/NC_016512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_TypeIA2_P_acn17_uid80735/NC_016512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_TypeIA2_P_acn31_uid80733/NC_016511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_TypeIA2_P_acn31_uid80733/NC_016511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_TypeIA2_P_acn31_uid80733/NC_016511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_TypeIA2_P_acn33_uid80745/NC_016516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_TypeIA2_P_acn33_uid80745/NC_016516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_acnes_TypeIA2_P_acn33_uid80745/NC_016516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_avidum_44067_uid197361/NC_021064.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_avidum_44067_uid197361/NC_021064.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_avidum_44067_uid197361/NC_021064.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_freudenreichii_shermanii_CIRM_BIA1_uid49535/NC_014215.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_freudenreichii_shermanii_CIRM_BIA1_uid49535/NC_014215.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_freudenreichii_shermanii_CIRM_BIA1_uid49535/NC_014215.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_propionicum_F0230a_uid170533/NC_018142.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_propionicum_F0230a_uid170533/NC_018142.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Propionibacterium_propionicum_F0230a_uid170533/NC_018142.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prosthecochloris_aestuarii_DSM_271_uid58151/NC_011059.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prosthecochloris_aestuarii_DSM_271_uid58151/NC_011059.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prosthecochloris_aestuarii_DSM_271_uid58151/NC_011059.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prosthecochloris_aestuarii_DSM_271_uid58151/NC_011061.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prosthecochloris_aestuarii_DSM_271_uid58151/NC_011061.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Prosthecochloris_aestuarii_DSM_271_uid58151/NC_011061.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Proteus_mirabilis_BB2000_uid214430/NC_022000.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Proteus_mirabilis_BB2000_uid214430/NC_022000.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Proteus_mirabilis_BB2000_uid214430/NC_022000.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Proteus_mirabilis_HI4320_uid61599/NC_010554.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Proteus_mirabilis_HI4320_uid61599/NC_010554.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Proteus_mirabilis_HI4320_uid61599/NC_010554.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Proteus_mirabilis_HI4320_uid61599/NC_010555.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Proteus_mirabilis_HI4320_uid61599/NC_010555.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Proteus_mirabilis_HI4320_uid61599/NC_010555.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Providencia_stuartii_MRSN_2154_uid162193/NC_017731.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Providencia_stuartii_MRSN_2154_uid162193/NC_017731.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Providencia_stuartii_MRSN_2154_uid162193/NC_017731.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudanabaena_PCC_7367_uid183004/NC_019690.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudanabaena_PCC_7367_uid183004/NC_019690.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudanabaena_PCC_7367_uid183004/NC_019690.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudanabaena_PCC_7367_uid183004/NC_019701.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudanabaena_PCC_7367_uid183004/NC_019701.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudanabaena_PCC_7367_uid183004/NC_019701.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_SM9913_uid61247/NC_014800.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_SM9913_uid61247/NC_014800.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_SM9913_uid61247/NC_014800.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_SM9913_uid61247/NC_014803.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_SM9913_uid61247/NC_014803.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_SM9913_uid61247/NC_014803.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_atlantica_T6c_uid58283/NC_008228.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_atlantica_T6c_uid58283/NC_008228.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_atlantica_T6c_uid58283/NC_008228.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_haloplanktis_TAC125_uid58431/NC_007481.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_haloplanktis_TAC125_uid58431/NC_007481.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_haloplanktis_TAC125_uid58431/NC_007481.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_haloplanktis_TAC125_uid58431/NC_007482.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_haloplanktis_TAC125_uid58431/NC_007482.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoalteromonas_haloplanktis_TAC125_uid58431/NC_007482.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudogulbenkiania_NH8B_uid73423/NC_016002.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudogulbenkiania_NH8B_uid73423/NC_016002.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudogulbenkiania_NH8B_uid73423/NC_016002.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_ND6_uid167583/NC_005244.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_ND6_uid167583/NC_005244.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_ND6_uid167583/NC_005244.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_ND6_uid167583/NC_017986.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_ND6_uid167583/NC_017986.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_ND6_uid167583/NC_017986.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_ND6_uid167583/NC_018746.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_ND6_uid167583/NC_018746.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_ND6_uid167583/NC_018746.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_TKP_uid232248/NC_023064.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_TKP_uid232248/NC_023064.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_TKP_uid232248/NC_023064.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_VLB120_uid226717/NC_022738.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_VLB120_uid226717/NC_022738.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_VLB120_uid226717/NC_022738.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_VLB120_uid226717/NC_022739.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_VLB120_uid226717/NC_022739.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_VLB120_uid226717/NC_022739.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_B136_33_uid196598/NC_020912.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_B136_33_uid196598/NC_020912.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_B136_33_uid196598/NC_020912.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_DK2_uid168996/NC_018080.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_DK2_uid168996/NC_018080.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_DK2_uid168996/NC_018080.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_LES431_uid232245/NC_023066.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_LES431_uid232245/NC_023066.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_LES431_uid232245/NC_023066.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_LESB58_uid59275/NC_011770.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_LESB58_uid59275/NC_011770.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_LESB58_uid59275/NC_011770.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_M18_uid162089/NC_017548.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_M18_uid162089/NC_017548.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_M18_uid162089/NC_017548.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_MTB_uid231150/NC_023019.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_MTB_uid231150/NC_023019.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_MTB_uid231150/NC_023019.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_NCGM2_S1_uid162173/NC_017549.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_NCGM2_S1_uid162173/NC_017549.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_NCGM2_S1_uid162173/NC_017549.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PA1R_uid228932/NC_022806.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PA1R_uid228932/NC_022806.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PA1R_uid228932/NC_022806.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PA1_uid228931/NC_022808.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PA1_uid228931/NC_022808.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PA1_uid228931/NC_022808.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PA7_uid58627/NC_009656.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PA7_uid58627/NC_009656.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PA7_uid58627/NC_009656.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO1_VE13_uid225027/NC_022594.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO1_VE13_uid225027/NC_022594.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO1_VE13_uid225027/NC_022594.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO1_VE2_uid225026/NC_022591.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO1_VE2_uid225026/NC_022591.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO1_VE2_uid225026/NC_022591.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO1_uid57945/NC_002516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO1_uid57945/NC_002516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO1_uid57945/NC_002516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO581_uid219357/NC_022361.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO581_uid219357/NC_022361.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_PAO581_uid219357/NC_022361.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_RP73_uid209328/NC_021577.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_RP73_uid209328/NC_021577.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_RP73_uid209328/NC_021577.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_SCV20265_uid232358/NC_023149.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_SCV20265_uid232358/NC_023149.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_SCV20265_uid232358/NC_023149.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_UCBPP_PA14_uid57977/NC_008463.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_UCBPP_PA14_uid57977/NC_008463.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_UCBPP_PA14_uid57977/NC_008463.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_c7447m_uid219358/NC_022360.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_c7447m_uid219358/NC_022360.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_aeruginosa_c7447m_uid219358/NC_022360.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_brassicacearum_NFM421_uid66303/NC_015379.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_brassicacearum_NFM421_uid66303/NC_015379.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_brassicacearum_NFM421_uid66303/NC_015379.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_denitrificans_ATCC_13867_uid195459/NC_020829.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_denitrificans_ATCC_13867_uid195459/NC_020829.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_denitrificans_ATCC_13867_uid195459/NC_020829.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_entomophila_L48_uid58639/NC_008027.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_entomophila_L48_uid58639/NC_008027.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_entomophila_L48_uid58639/NC_008027.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_A506_uid165185/NC_017911.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_A506_uid165185/NC_017911.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_A506_uid165185/NC_017911.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_A506_uid165185/NC_021361.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_A506_uid165185/NC_021361.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_A506_uid165185/NC_021361.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_CHA0_uid203393/NC_021237.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_CHA0_uid203393/NC_021237.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_CHA0_uid203393/NC_021237.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_F113_uid87037/NC_016830.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_F113_uid87037/NC_016830.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_F113_uid87037/NC_016830.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_Pf0_1_uid57591/NC_007492.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_Pf0_1_uid57591/NC_007492.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_Pf0_1_uid57591/NC_007492.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_Pf_5_uid57937/NC_004129.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_Pf_5_uid57937/NC_004129.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_Pf_5_uid57937/NC_004129.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_R124_uid182045/NC_022437.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_R124_uid182045/NC_022437.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_R124_uid182045/NC_022437.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_SBW25_uid158693/NC_012660.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_SBW25_uid158693/NC_012660.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fluorescens_SBW25_uid158693/NC_012660.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fulva_12_X_uid67351/NC_015556.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fulva_12_X_uid67351/NC_015556.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_fulva_12_X_uid67351/NC_015556.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_mendocina_NK_01_uid66299/NC_015410.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_mendocina_NK_01_uid66299/NC_015410.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_mendocina_NK_01_uid66299/NC_015410.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_mendocina_ymp_uid58723/NC_009439.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_mendocina_ymp_uid58723/NC_009439.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_mendocina_ymp_uid58723/NC_009439.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_monteilii_SB3078_uid232252/NC_023075.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_monteilii_SB3078_uid232252/NC_023075.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_monteilii_SB3078_uid232252/NC_023075.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_monteilii_SB3101_uid232253/NC_023076.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_monteilii_SB3101_uid232253/NC_023076.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_monteilii_SB3101_uid232253/NC_023076.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_poae_RE_1_1_14_uid188480/NC_020209.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_poae_RE_1_1_14_uid188480/NC_020209.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_poae_RE_1_1_14_uid188480/NC_020209.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_BIRD_1_uid162055/NC_017530.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_BIRD_1_uid162055/NC_017530.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_BIRD_1_uid162055/NC_017530.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_DOT_T1E_uid171260/NC_018220.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_DOT_T1E_uid171260/NC_018220.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_DOT_T1E_uid171260/NC_018220.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_F1_uid58355/NC_009512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_F1_uid58355/NC_009512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_F1_uid58355/NC_009512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_GB_1_uid58735/NC_010322.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_GB_1_uid58735/NC_010322.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_GB_1_uid58735/NC_010322.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_H8234_uid208673/NC_021491.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_H8234_uid208673/NC_021491.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_H8234_uid208673/NC_021491.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_HB3267_uid184078/NC_019905.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_HB3267_uid184078/NC_019905.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_HB3267_uid184078/NC_019905.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_HB3267_uid184078/NC_019906.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_HB3267_uid184078/NC_019906.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_HB3267_uid184078/NC_019906.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_KT2440_uid57843/NC_002947.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_KT2440_uid57843/NC_002947.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_KT2440_uid57843/NC_002947.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_NBRC_14164_uid208670/NC_021505.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_NBRC_14164_uid208670/NC_021505.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_NBRC_14164_uid208670/NC_021505.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_S16_uid68747/NC_015733.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_S16_uid68747/NC_015733.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_S16_uid68747/NC_015733.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_UW4_uid182733/NC_019670.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_UW4_uid182733/NC_019670.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_UW4_uid182733/NC_019670.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_W619_uid58651/NC_010501.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_W619_uid58651/NC_010501.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_putida_W619_uid58651/NC_010501.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_resinovorans_NBRC_106553_uid208671/NC_021499.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_resinovorans_NBRC_106553_uid208671/NC_021499.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_resinovorans_NBRC_106553_uid208671/NC_021499.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_resinovorans_NBRC_106553_uid208671/NC_021506.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_resinovorans_NBRC_106553_uid208671/NC_021506.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_resinovorans_NBRC_106553_uid208671/NC_021506.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_A1501_uid58641/NC_009434.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_A1501_uid58641/NC_009434.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_A1501_uid58641/NC_009434.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_ATCC_17588___LMG_11199_uid68749/NC_015740.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_ATCC_17588___LMG_11199_uid68749/NC_015740.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_ATCC_17588___LMG_11199_uid68749/NC_015740.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_CCUG_29243_uid168379/NC_018028.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_CCUG_29243_uid168379/NC_018028.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_CCUG_29243_uid168379/NC_018028.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_DSM_10701_uid170940/NC_018177.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_DSM_10701_uid170940/NC_018177.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_DSM_10701_uid170940/NC_018177.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_DSM_4166_uid162113/NC_017532.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_DSM_4166_uid162113/NC_017532.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_DSM_4166_uid162113/NC_017532.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019936.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019936.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019936.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019937.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019937.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019937.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019938.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019938.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019938.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019939.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019939.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_stutzeri_RCH2_uid184342/NC_019939.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_B728a_uid57931/NC_007005.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_B728a_uid57931/NC_007005.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_B728a_uid57931/NC_007005.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_phaseolicola_1448A_uid58099/NC_005773.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_phaseolicola_1448A_uid58099/NC_005773.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_phaseolicola_1448A_uid58099/NC_005773.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_phaseolicola_1448A_uid58099/NC_007274.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_phaseolicola_1448A_uid58099/NC_007274.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_phaseolicola_1448A_uid58099/NC_007274.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_phaseolicola_1448A_uid58099/NC_007275.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_phaseolicola_1448A_uid58099/NC_007275.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_phaseolicola_1448A_uid58099/NC_007275.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_tomato_DC3000_uid57967/NC_004578.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_tomato_DC3000_uid57967/NC_004578.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_tomato_DC3000_uid57967/NC_004578.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_tomato_DC3000_uid57967/NC_004632.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_tomato_DC3000_uid57967/NC_004632.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_tomato_DC3000_uid57967/NC_004632.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_tomato_DC3000_uid57967/NC_004633.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_tomato_DC3000_uid57967/NC_004633.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudomonas_syringae_tomato_DC3000_uid57967/NC_004633.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_015312.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_015312.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_015312.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_015313.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_015313.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_015313.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_015314.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_015314.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_015314.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_016600.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_016600.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_016600.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_016601.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_016601.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_016601.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_017772.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_017772.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudonocardia_dioxanivorans_CB1190_uid65087/NC_017772.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudovibrio_FO_BEG1_uid82373/NC_016642.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudovibrio_FO_BEG1_uid82373/NC_016642.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudovibrio_FO_BEG1_uid82373/NC_016642.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudovibrio_FO_BEG1_uid82373/NC_016646.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudovibrio_FO_BEG1_uid82373/NC_016646.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudovibrio_FO_BEG1_uid82373/NC_016646.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoxanthomonas_spadix_BD_a59_uid75113/NC_016147.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoxanthomonas_spadix_BD_a59_uid75113/NC_016147.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoxanthomonas_spadix_BD_a59_uid75113/NC_016147.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoxanthomonas_suwonensis_11_1_uid62105/NC_014924.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoxanthomonas_suwonensis_11_1_uid62105/NC_014924.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pseudoxanthomonas_suwonensis_11_1_uid62105/NC_014924.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021661.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021661.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021661.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021662.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021662.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021662.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021668.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021668.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021668.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021669.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021669.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_G_uid210641/NC_021669.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_PRwf_1_uid58459/NC_009516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_PRwf_1_uid58459/NC_009516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_PRwf_1_uid58459/NC_009516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_PRwf_1_uid58459/NC_009517.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_PRwf_1_uid58459/NC_009517.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_PRwf_1_uid58459/NC_009517.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_PRwf_1_uid58459/NC_009524.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_PRwf_1_uid58459/NC_009524.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_PRwf_1_uid58459/NC_009524.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_arcticus_273_4_uid58021/NC_007204.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_arcticus_273_4_uid58021/NC_007204.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_arcticus_273_4_uid58021/NC_007204.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_cryohalolentis_K5_uid58373/NC_007968.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_cryohalolentis_K5_uid58373/NC_007968.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_cryohalolentis_K5_uid58373/NC_007968.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_cryohalolentis_K5_uid58373/NC_007969.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_cryohalolentis_K5_uid58373/NC_007969.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychrobacter_cryohalolentis_K5_uid58373/NC_007969.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychroflexus_torquis_ATCC_700755_uid54205/NC_018721.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychroflexus_torquis_ATCC_700755_uid54205/NC_018721.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychroflexus_torquis_ATCC_700755_uid54205/NC_018721.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychromonas_CNPT3_uid54249/NC_020802.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychromonas_CNPT3_uid54249/NC_020802.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychromonas_CNPT3_uid54249/NC_020802.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychromonas_ingrahamii_37_uid58521/NC_008709.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychromonas_ingrahamii_37_uid58521/NC_008709.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Psychromonas_ingrahamii_37_uid58521/NC_008709.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pusillimonas_T7_7_uid66391/NC_015458.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pusillimonas_T7_7_uid66391/NC_015458.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pusillimonas_T7_7_uid66391/NC_015458.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pusillimonas_T7_7_uid66391/NC_015459.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pusillimonas_T7_7_uid66391/NC_015459.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pusillimonas_T7_7_uid66391/NC_015459.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pyrobaculum_1860_uid82379/NC_016645.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pyrobaculum_1860_uid82379/NC_016645.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pyrobaculum_1860_uid82379/NC_016645.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pyrococcus_NA2_uid66551/NC_015474.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pyrococcus_NA2_uid66551/NC_015474.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pyrococcus_NA2_uid66551/NC_015474.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pyrococcus_ST04_uid167261/NC_017946.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pyrococcus_ST04_uid167261/NC_017946.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Pyrococcus_ST04_uid167261/NC_017946.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_Y9602_uid62715/NC_015061.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_Y9602_uid62715/NC_015061.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_Y9602_uid62715/NC_015061.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_Y9602_uid62715/NC_015062.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_Y9602_uid62715/NC_015062.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_Y9602_uid62715/NC_015062.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_Y9602_uid62715/NC_015063.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_Y9602_uid62715/NC_015063.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_Y9602_uid62715/NC_015063.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_016818.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_016818.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_016818.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_016819.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_016819.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_016819.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_016835.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_016835.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_016835.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_017092.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_017092.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_CIP_78_65___ATCC_33071_uid86855/NC_017092.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017047.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017047.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017047.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017060.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017060.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017060.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017773.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017773.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017773.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017807.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017807.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rahnella_aquatilis_HX2_uid158049/NC_017807.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_H16_uid62925/NC_005241.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_H16_uid62925/NC_005241.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_H16_uid62925/NC_005241.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_H16_uid62925/NC_008313.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_H16_uid62925/NC_008313.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_H16_uid62925/NC_008313.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_H16_uid62925/NC_008314.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_H16_uid62925/NC_008314.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_H16_uid62925/NC_008314.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007336.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007336.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007336.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007337.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007337.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007337.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007347.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007347.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007347.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007348.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007348.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_eutropha_JMP134_uid58047/NC_007348.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012849.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012849.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012849.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012851.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012851.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012851.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012855.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012855.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012855.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012856.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012856.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012856.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012857.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012857.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12D_uid58859/NC_012857.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12J_uid58737/NC_010678.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12J_uid58737/NC_010678.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12J_uid58737/NC_010678.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12J_uid58737/NC_010682.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12J_uid58737/NC_010682.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12J_uid58737/NC_010682.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12J_uid58737/NC_010683.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12J_uid58737/NC_010683.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_12J_uid58737/NC_010683.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_DTP0602_uid222229/NC_022513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_DTP0602_uid222229/NC_022513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_DTP0602_uid222229/NC_022513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_DTP0602_uid222229/NC_022514.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_DTP0602_uid222229/NC_022514.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_DTP0602_uid222229/NC_022514.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_DTP0602_uid222229/NC_022515.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_DTP0602_uid222229/NC_022515.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_pickettii_DTP0602_uid222229/NC_022515.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CFBP2957_uid50545/NC_014307.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CFBP2957_uid50545/NC_014307.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CFBP2957_uid50545/NC_014307.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CFBP2957_uid50545/NC_014309.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CFBP2957_uid50545/NC_014309.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CFBP2957_uid50545/NC_014309.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CMR15_uid227773/NC_017558.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CMR15_uid227773/NC_017558.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CMR15_uid227773/NC_017558.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CMR15_uid227773/NC_017559.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CMR15_uid227773/NC_017559.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CMR15_uid227773/NC_017559.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CMR15_uid227773/NC_017589.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CMR15_uid227773/NC_017589.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_CMR15_uid227773/NC_017589.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_FQY_4_f_uid194089/NC_020799.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_FQY_4_f_uid194089/NC_020799.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_FQY_4_f_uid194089/NC_020799.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_FQY_4_f_uid194089/NC_021745.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_FQY_4_f_uid194089/NC_021745.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_FQY_4_f_uid194089/NC_021745.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_GMI1000_uid57593/NC_003295.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_GMI1000_uid57593/NC_003295.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_GMI1000_uid57593/NC_003295.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_GMI1000_uid57593/NC_003296.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_GMI1000_uid57593/NC_003296.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_GMI1000_uid57593/NC_003296.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_PSI07_uid50539/NC_014308.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_PSI07_uid50539/NC_014308.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_PSI07_uid50539/NC_014308.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_PSI07_uid50539/NC_014310.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_PSI07_uid50539/NC_014310.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_PSI07_uid50539/NC_014310.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_PSI07_uid50539/NC_014311.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_PSI07_uid50539/NC_014311.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_PSI07_uid50539/NC_014311.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_Po82_uid162133/NC_017574.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_Po82_uid162133/NC_017574.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_Po82_uid162133/NC_017574.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_Po82_uid162133/NC_017575.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_Po82_uid162133/NC_017575.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ralstonia_solanacearum_Po82_uid162133/NC_017575.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ramlibacter_tataouinensis_TTB310_uid68279/NC_015677.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ramlibacter_tataouinensis_TTB310_uid68279/NC_015677.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ramlibacter_tataouinensis_TTB310_uid68279/NC_015677.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Raoultella_ornithinolytica_B6_uid198431/NC_021066.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Raoultella_ornithinolytica_B6_uid198431/NC_021066.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Raoultella_ornithinolytica_B6_uid198431/NC_021066.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Renibacterium_salmoninarum_ATCC_33209_uid58899/NC_010168.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Renibacterium_salmoninarum_ATCC_33209_uid58899/NC_010168.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Renibacterium_salmoninarum_ATCC_33209_uid58899/NC_010168.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_IRBG74_uid222820/NC_022535.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_IRBG74_uid222820/NC_022535.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_IRBG74_uid222820/NC_022535.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_IRBG74_uid222820/NC_022536.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_IRBG74_uid222820/NC_022536.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_IRBG74_uid222820/NC_022536.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_IRBG74_uid222820/NC_022545.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_IRBG74_uid222820/NC_022545.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_IRBG74_uid222820/NC_022545.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_NGR234_uid59081/NC_000914.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_NGR234_uid59081/NC_000914.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_NGR234_uid59081/NC_000914.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_NGR234_uid59081/NC_012586.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_NGR234_uid59081/NC_012586.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_NGR234_uid59081/NC_012586.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_NGR234_uid59081/NC_012587.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_NGR234_uid59081/NC_012587.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_NGR234_uid59081/NC_012587.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_004041.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_004041.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_004041.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007761.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007761.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007761.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007762.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007762.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007762.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007763.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007763.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007763.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007764.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007764.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007764.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007765.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007765.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007765.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007766.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007766.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CFN_42_uid58377/NC_007766.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010994.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010994.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010994.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010996.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010996.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010996.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010997.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010997.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010997.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010998.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010998.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_CIAT_652_uid59115/NC_010998.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021905.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021905.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021905.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021906.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021906.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021906.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021907.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021907.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021907.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021908.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021908.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021908.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021909.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021909.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021909.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021910.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021910.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021910.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021911.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021911.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_etli_bv__mimosae_Mim1_uid213896/NC_021911.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012848.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012848.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012848.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012850.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012850.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012850.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012852.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012852.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012852.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012853.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012853.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012853.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012854.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012854.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012854.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012858.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012858.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM1325_uid58991/NC_012858.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011366.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011366.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011366.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011368.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011368.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011368.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011369.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011369.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011369.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011370.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011370.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011370.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011371.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011371.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__trifolii_WSM2304_uid58997/NC_011371.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008378.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008378.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008378.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008379.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008379.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008379.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008380.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008380.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008380.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008381.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008381.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008381.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008382.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008382.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008382.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008383.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008383.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008383.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008384.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008384.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_leguminosarum_bv__viciae_3841_uid57955/NC_008384.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020059.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020059.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020059.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020060.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020060.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020060.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020061.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020061.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020061.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020062.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020062.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhizobium_tropici_CIAT_899_uid185179/NC_020062.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodanobacter_2APBS1_uid74431/NC_020541.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodanobacter_2APBS1_uid74431/NC_020541.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodanobacter_2APBS1_uid74431/NC_020541.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_capsulatus_SB_1003_uid47509/NC_014034.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_capsulatus_SB_1003_uid47509/NC_014034.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_capsulatus_SB_1003_uid47509/NC_014034.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_capsulatus_SB_1003_uid47509/NC_014035.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_capsulatus_SB_1003_uid47509/NC_014035.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_capsulatus_SB_1003_uid47509/NC_014035.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007488.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007488.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007488.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007489.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007489.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007489.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007490.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007490.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007490.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007493.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007493.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007493.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007494.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007494.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_007494.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_009007.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_009007.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_009007.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_009008.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_009008.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_2_4_1_uid57653/NC_009008.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009428.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009428.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009428.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009429.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009429.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009429.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009430.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009430.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009430.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009431.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009431.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009431.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009432.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009432.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009432.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009433.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009433.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17025_uid58451/NC_009433.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17029_uid58449/NC_009040.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17029_uid58449/NC_009040.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17029_uid58449/NC_009040.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17029_uid58449/NC_009049.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17029_uid58449/NC_009049.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17029_uid58449/NC_009049.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17029_uid58449/NC_009050.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17029_uid58449/NC_009050.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_ATCC_17029_uid58449/NC_009050.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011960.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011960.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011960.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011962.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011962.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011962.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011963.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011963.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodobacter_sphaeroides_KD131_uid59277/NC_011963.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_equi_103S_uid60171/NC_014659.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_equi_103S_uid60171/NC_014659.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_equi_103S_uid60171/NC_014659.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_CCM2595_uid216088/NC_022115.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_CCM2595_uid216088/NC_022115.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_CCM2595_uid216088/NC_022115.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_CCM2595_uid216088/NC_022125.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_CCM2595_uid216088/NC_022125.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_CCM2595_uid216088/NC_022125.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_007486.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_007486.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_007486.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_007487.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_007487.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_007487.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_007491.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_007491.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_007491.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_012490.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_012490.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_erythropolis_PR4_uid59019/NC_012490.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008268.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008268.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008268.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008269.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008269.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008269.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008270.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008270.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008270.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008271.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008271.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_jostii_RHA1_uid58325/NC_008271.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_006969.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_006969.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_006969.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_006970.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_006970.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_006970.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012520.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012520.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012520.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012521.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012521.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012521.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012522.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012522.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012522.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012523.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012523.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_opacus_B4_uid13791/NC_012523.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_pyridinivorans_SB3094_uid232359/NC_023144.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_pyridinivorans_SB3094_uid232359/NC_023144.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_pyridinivorans_SB3094_uid232359/NC_023144.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_pyridinivorans_SB3094_uid232359/NC_023145.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_pyridinivorans_SB3094_uid232359/NC_023145.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_pyridinivorans_SB3094_uid232359/NC_023145.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_pyridinivorans_SB3094_uid232359/NC_023150.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_pyridinivorans_SB3094_uid232359/NC_023150.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodococcus_pyridinivorans_SB3094_uid232359/NC_023150.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodoferax_ferrireducens_T118_uid58353/NC_007901.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodoferax_ferrireducens_T118_uid58353/NC_007901.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodoferax_ferrireducens_T118_uid58353/NC_007901.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodoferax_ferrireducens_T118_uid58353/NC_007908.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodoferax_ferrireducens_T118_uid58353/NC_007908.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodoferax_ferrireducens_T118_uid58353/NC_007908.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodomicrobium_vannielii_ATCC_17100_uid43247/NC_014664.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodomicrobium_vannielii_ATCC_17100_uid43247/NC_014664.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodomicrobium_vannielii_ATCC_17100_uid43247/NC_014664.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopirellula_baltica_SH_1_uid61589/NC_005027.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopirellula_baltica_SH_1_uid61589/NC_005027.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopirellula_baltica_SH_1_uid61589/NC_005027.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_BisA53_uid58445/NC_008435.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_BisA53_uid58445/NC_008435.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_BisA53_uid58445/NC_008435.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_BisB18_uid58443/NC_007925.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_BisB18_uid58443/NC_007925.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_BisB18_uid58443/NC_007925.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_BisB5_uid58441/NC_007958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_BisB5_uid58441/NC_007958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_BisB5_uid58441/NC_007958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_CGA009_uid62901/NC_005296.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_CGA009_uid62901/NC_005296.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_CGA009_uid62901/NC_005296.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_CGA009_uid62901/NC_005297.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_CGA009_uid62901/NC_005297.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_CGA009_uid62901/NC_005297.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_DX_1_uid43327/NC_014834.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_DX_1_uid43327/NC_014834.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_DX_1_uid43327/NC_014834.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_HaA2_uid58439/NC_007778.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_HaA2_uid58439/NC_007778.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_HaA2_uid58439/NC_007778.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_TIE_1_uid58995/NC_011004.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_TIE_1_uid58995/NC_011004.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodopseudomonas_palustris_TIE_1_uid58995/NC_011004.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_centenum_SW_uid58805/NC_011420.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_centenum_SW_uid58805/NC_011420.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_centenum_SW_uid58805/NC_011420.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_photometricum_uid159003/NC_017059.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_photometricum_uid159003/NC_017059.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_photometricum_uid159003/NC_017059.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_rubrum_ATCC_11170_uid57655/NC_007641.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_rubrum_ATCC_11170_uid57655/NC_007641.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_rubrum_ATCC_11170_uid57655/NC_007641.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_rubrum_ATCC_11170_uid57655/NC_007643.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_rubrum_ATCC_11170_uid57655/NC_007643.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_rubrum_ATCC_11170_uid57655/NC_007643.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_rubrum_F11_uid162149/NC_017584.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_rubrum_F11_uid162149/NC_017584.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodospirillum_rubrum_F11_uid162149/NC_017584.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_DSM_4252_uid41729/NC_013501.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_DSM_4252_uid41729/NC_013501.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_DSM_4252_uid41729/NC_013501.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_DSM_4252_uid41729/NC_013502.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_DSM_4252_uid41729/NC_013502.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_DSM_4252_uid41729/NC_013502.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_SG0_5JP17_172_uid72767/NC_015966.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_SG0_5JP17_172_uid72767/NC_015966.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_SG0_5JP17_172_uid72767/NC_015966.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_SG0_5JP17_172_uid72767/NC_015967.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_SG0_5JP17_172_uid72767/NC_015967.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_SG0_5JP17_172_uid72767/NC_015967.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_SG0_5JP17_172_uid72767/NC_015970.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_SG0_5JP17_172_uid72767/NC_015970.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rhodothermus_marinus_SG0_5JP17_172_uid72767/NC_015970.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_africae_ESF_5_uid58799/NC_012633.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_africae_ESF_5_uid58799/NC_012633.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_africae_ESF_5_uid58799/NC_012633.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_africae_ESF_5_uid58799/NC_012634.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_africae_ESF_5_uid58799/NC_012634.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_africae_ESF_5_uid58799/NC_012634.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_akari_Hartford_uid58161/NC_009881.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_akari_Hartford_uid58161/NC_009881.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_akari_Hartford_uid58161/NC_009881.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_australis_Cutlack_uid158039/NC_017041.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_australis_Cutlack_uid158039/NC_017041.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_australis_Cutlack_uid158039/NC_017041.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_australis_Cutlack_uid158039/NC_017058.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_australis_Cutlack_uid158039/NC_017058.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_australis_Cutlack_uid158039/NC_017058.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_bellii_OSU_85_389_uid58681/NC_009883.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_bellii_OSU_85_389_uid58681/NC_009883.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_bellii_OSU_85_389_uid58681/NC_009883.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_bellii_RML369_C_uid58405/NC_007940.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_bellii_RML369_C_uid58405/NC_007940.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_bellii_RML369_C_uid58405/NC_007940.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_canadensis_CA410_uid88063/NC_016929.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_canadensis_CA410_uid88063/NC_016929.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_canadensis_CA410_uid88063/NC_016929.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_canadensis_McKiel_uid58159/NC_009879.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_canadensis_McKiel_uid58159/NC_009879.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_canadensis_McKiel_uid58159/NC_009879.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_conorii_Malish_7_uid57633/NC_003103.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_conorii_Malish_7_uid57633/NC_003103.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_conorii_Malish_7_uid57633/NC_003103.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_felis_URRWXCal2_uid58331/NC_007109.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_felis_URRWXCal2_uid58331/NC_007109.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_felis_URRWXCal2_uid58331/NC_007109.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_felis_URRWXCal2_uid58331/NC_007110.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_felis_URRWXCal2_uid58331/NC_007110.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_felis_URRWXCal2_uid58331/NC_007110.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_felis_URRWXCal2_uid58331/NC_007111.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_felis_URRWXCal2_uid58331/NC_007111.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_felis_URRWXCal2_uid58331/NC_007111.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_heilongjiangensis_054_uid70839/NC_015866.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_heilongjiangensis_054_uid70839/NC_015866.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_heilongjiangensis_054_uid70839/NC_015866.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_japonica_YH_uid73963/NC_016050.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_japonica_YH_uid73963/NC_016050.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_japonica_YH_uid73963/NC_016050.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_AZT80_uid86751/NC_016931.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_AZT80_uid86751/NC_016931.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_AZT80_uid86751/NC_016931.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_AZT80_uid86751/NC_016939.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_AZT80_uid86751/NC_016939.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_AZT80_uid86751/NC_016939.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_MTU5_uid58801/NC_009897.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_MTU5_uid58801/NC_009897.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_MTU5_uid58801/NC_009897.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_MTU5_uid58801/NC_009900.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_MTU5_uid58801/NC_009900.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_massiliae_MTU5_uid58801/NC_009900.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_montanensis_OSU_85_930_uid158043/NC_017043.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_montanensis_OSU_85_930_uid158043/NC_017043.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_montanensis_OSU_85_930_uid158043/NC_017043.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_parkeri_Portsmouth_uid158045/NC_017044.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_parkeri_Portsmouth_uid158045/NC_017044.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_parkeri_Portsmouth_uid158045/NC_017044.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_peacockii_Rustic_uid59301/NC_012730.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_peacockii_Rustic_uid59301/NC_012730.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_peacockii_Rustic_uid59301/NC_012730.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_peacockii_Rustic_uid59301/NC_012732.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_peacockii_Rustic_uid59301/NC_012732.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_peacockii_Rustic_uid59301/NC_012732.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_philipii_364D_uid89383/NC_016930.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_philipii_364D_uid89383/NC_016930.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_philipii_364D_uid89383/NC_016930.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Breinl_uid196851/NC_020993.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Breinl_uid196851/NC_020993.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Breinl_uid196851/NC_020993.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_BuV67_CWPP_uid158063/NC_017056.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_BuV67_CWPP_uid158063/NC_017056.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_BuV67_CWPP_uid158063/NC_017056.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Chernikova_uid158053/NC_017049.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Chernikova_uid158053/NC_017049.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Chernikova_uid158053/NC_017049.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Dachau_uid158057/NC_017051.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Dachau_uid158057/NC_017051.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Dachau_uid158057/NC_017051.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_GvV257_uid158051/NC_017048.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_GvV257_uid158051/NC_017048.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_GvV257_uid158051/NC_017048.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Katsinyian_uid158055/NC_017050.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Katsinyian_uid158055/NC_017050.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Katsinyian_uid158055/NC_017050.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Madrid_E_uid61565/NC_000963.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Madrid_E_uid61565/NC_000963.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Madrid_E_uid61565/NC_000963.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_NMRC_Madrid_E_uid196850/NC_020992.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_NMRC_Madrid_E_uid196850/NC_020992.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_NMRC_Madrid_E_uid196850/NC_020992.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Rp22_uid161945/NC_017560.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Rp22_uid161945/NC_017560.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_Rp22_uid161945/NC_017560.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_RpGvF24_uid158065/NC_017057.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_RpGvF24_uid158065/NC_017057.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_prowazekii_RpGvF24_uid158065/NC_017057.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rhipicephali_3_7_female6_CWPP_uid156977/NC_017042.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rhipicephali_3_7_female6_CWPP_uid156977/NC_017042.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rhipicephali_3_7_female6_CWPP_uid156977/NC_017042.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rhipicephali_3_7_female6_CWPP_uid156977/NC_017055.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rhipicephali_3_7_female6_CWPP_uid156977/NC_017055.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rhipicephali_3_7_female6_CWPP_uid156977/NC_017055.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Arizona_uid86655/NC_016909.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Arizona_uid86655/NC_016909.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Arizona_uid86655/NC_016909.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Brazil_uid88069/NC_016913.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Brazil_uid88069/NC_016913.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Brazil_uid88069/NC_016913.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Colombia_uid86653/NC_016908.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Colombia_uid86653/NC_016908.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Colombia_uid86653/NC_016908.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Hauke_uid86659/NC_016911.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Hauke_uid86659/NC_016911.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Hauke_uid86659/NC_016911.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Hino_uid86657/NC_016914.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Hino_uid86657/NC_016914.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Hino_uid86657/NC_016914.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Hlp_2_uid88067/NC_016915.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Hlp_2_uid88067/NC_016915.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Hlp_2_uid88067/NC_016915.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Iowa_uid58961/NC_010263.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Iowa_uid58961/NC_010263.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii_Iowa_uid58961/NC_010263.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii__Sheila_Smith__uid58027/NC_009882.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii__Sheila_Smith__uid58027/NC_009882.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_rickettsii__Sheila_Smith__uid58027/NC_009882.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_slovaca_13_B_uid82369/NC_016639.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_slovaca_13_B_uid82369/NC_016639.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_slovaca_13_B_uid82369/NC_016639.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_slovaca_D_CWPP_uid158159/NC_017065.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_slovaca_D_CWPP_uid158159/NC_017065.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_slovaca_D_CWPP_uid158159/NC_017065.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_typhi_B9991CWPP_uid158357/NC_017062.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_typhi_B9991CWPP_uid158357/NC_017062.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_typhi_B9991CWPP_uid158357/NC_017062.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_typhi_TH1527_uid158161/NC_017066.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_typhi_TH1527_uid158161/NC_017066.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_typhi_TH1527_uid158161/NC_017066.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_typhi_Wilmington_uid58063/NC_006142.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_typhi_Wilmington_uid58063/NC_006142.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rickettsia_typhi_Wilmington_uid58063/NC_006142.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_ATCC_11845___DSM_15868_uid159857/NC_017045.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_ATCC_11845___DSM_15868_uid159857/NC_017045.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_ATCC_11845___DSM_15868_uid159857/NC_017045.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_ATCC_11845___DSM_15868_uid60727/NC_014738.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_ATCC_11845___DSM_15868_uid60727/NC_014738.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_ATCC_11845___DSM_15868_uid60727/NC_014738.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_RA_CH_1_uid175469/NC_018609.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_RA_CH_1_uid175469/NC_018609.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_RA_CH_1_uid175469/NC_018609.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_RA_CH_2_uid186548/NC_020125.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_RA_CH_2_uid186548/NC_020125.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_RA_CH_2_uid186548/NC_020125.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_RA_GD_uid162013/NC_017569.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_RA_GD_uid162013/NC_017569.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Riemerella_anatipestifer_RA_GD_uid162013/NC_017569.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rivularia_PCC_7116_uid182929/NC_019678.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rivularia_PCC_7116_uid182929/NC_019678.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rivularia_PCC_7116_uid182929/NC_019678.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rivularia_PCC_7116_uid182929/NC_019679.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rivularia_PCC_7116_uid182929/NC_019679.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rivularia_PCC_7116_uid182929/NC_019679.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rivularia_PCC_7116_uid182929/NC_019686.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rivularia_PCC_7116_uid182929/NC_019686.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rivularia_PCC_7116_uid182929/NC_019686.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Robiginitalea_biformata_HTCC2501_uid58285/NC_013222.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Robiginitalea_biformata_HTCC2501_uid58285/NC_013222.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Robiginitalea_biformata_HTCC2501_uid58285/NC_013222.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseburia_hominis_A2_183_uid73419/NC_015977.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseburia_hominis_A2_183_uid73419/NC_015977.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseburia_hominis_A2_183_uid73419/NC_015977.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseburia_intestinalis_XB6B4_uid197179/NC_021012.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseburia_intestinalis_XB6B4_uid197179/NC_021012.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseburia_intestinalis_XB6B4_uid197179/NC_021012.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseburia_intestinalis_uid197164/NC_021040.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseburia_intestinalis_uid197164/NC_021040.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseburia_intestinalis_uid197164/NC_021040.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseiflexus_RS_1_uid58523/NC_009523.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseiflexus_RS_1_uid58523/NC_009523.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseiflexus_RS_1_uid58523/NC_009523.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseiflexus_castenholzii_DSM_13941_uid58287/NC_009767.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseiflexus_castenholzii_DSM_13941_uid58287/NC_009767.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseiflexus_castenholzii_DSM_13941_uid58287/NC_009767.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008209.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008209.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008209.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008386.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008386.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008386.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008387.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008387.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008387.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008388.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008388.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008388.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008389.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008389.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_denitrificans_OCh_114_uid58597/NC_008389.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015728.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015728.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015728.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015729.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015729.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015729.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015730.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015730.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015730.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015741.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015741.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Roseobacter_litoralis_Och_149_uid54719/NC_015741.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rothia_dentocariosa_ATCC_17931_uid49331/NC_014643.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rothia_dentocariosa_ATCC_17931_uid49331/NC_014643.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rothia_dentocariosa_ATCC_17931_uid49331/NC_014643.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rothia_mucilaginosa_uid43093/NC_013715.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rothia_mucilaginosa_uid43093/NC_013715.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rothia_mucilaginosa_uid43093/NC_013715.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rubrivivax_gelatinosus_IL144_uid158163/NC_017075.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rubrivivax_gelatinosus_IL144_uid158163/NC_017075.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rubrivivax_gelatinosus_IL144_uid158163/NC_017075.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rubrobacter_xylanophilus_DSM_9941_uid58057/NC_008148.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rubrobacter_xylanophilus_DSM_9941_uid58057/NC_008148.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Rubrobacter_xylanophilus_DSM_9941_uid58057/NC_008148.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_TM1040_uid58193/NC_008042.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_TM1040_uid58193/NC_008042.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_TM1040_uid58193/NC_008042.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_TM1040_uid58193/NC_008043.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_TM1040_uid58193/NC_008043.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_TM1040_uid58193/NC_008043.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_TM1040_uid58193/NC_008044.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_TM1040_uid58193/NC_008044.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_TM1040_uid58193/NC_008044.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_pomeroyi_DSS_3_uid57863/NC_003911.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_pomeroyi_DSS_3_uid57863/NC_003911.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_pomeroyi_DSS_3_uid57863/NC_003911.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_pomeroyi_DSS_3_uid57863/NC_006569.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_pomeroyi_DSS_3_uid57863/NC_006569.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruegeria_pomeroyi_DSS_3_uid57863/NC_006569.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014824.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014824.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014824.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014825.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014825.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014825.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014826.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014826.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014826.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014827.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014827.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014827.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014833.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014833.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_albus_7_uid51721/NC_014833.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_bromii_uid197158/NC_021013.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_bromii_uid197158/NC_021013.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_bromii_uid197158/NC_021013.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_champanellensis_18P13_uid197169/NC_021039.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_champanellensis_18P13_uid197169/NC_021039.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_champanellensis_18P13_uid197169/NC_021039.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_uid197156/NC_021014.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_uid197156/NC_021014.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ruminococcus_uid197156/NC_021014.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015693.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015693.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015693.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015694.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015694.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015694.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015695.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015695.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015695.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015703.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015703.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015703.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015704.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015704.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015704.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015705.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015705.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Runella_slithyformis_DSM_19594_uid68317/NC_015705.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharomonospora_viridis_DSM_43017_uid59055/NC_013159.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharomonospora_viridis_DSM_43017_uid59055/NC_013159.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharomonospora_viridis_DSM_43017_uid59055/NC_013159.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharophagus_degradans_2_40_uid57921/NC_007912.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharophagus_degradans_2_40_uid57921/NC_007912.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharophagus_degradans_2_40_uid57921/NC_007912.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharopolyspora_erythraea_NRRL_2338_uid62947/NC_009142.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharopolyspora_erythraea_NRRL_2338_uid62947/NC_009142.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharopolyspora_erythraea_NRRL_2338_uid62947/NC_009142.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharothrix_espanaensis_DSM_44229_uid184826/NC_019673.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharothrix_espanaensis_DSM_44229_uid184826/NC_019673.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saccharothrix_espanaensis_DSM_44229_uid184826/NC_019673.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinarchaeum_laminariae_Harcht_Bsk1_uid207001/NC_021313.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinarchaeum_laminariae_Harcht_Bsk1_uid207001/NC_021313.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinarchaeum_laminariae_Harcht_Bsk1_uid207001/NC_021313.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_DSM_13855_uid58513/NC_007677.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_DSM_13855_uid58513/NC_007677.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_DSM_13855_uid58513/NC_007677.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_DSM_13855_uid58513/NC_007678.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_DSM_13855_uid58513/NC_007678.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_DSM_13855_uid58513/NC_007678.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014026.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014026.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014026.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014028.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014028.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014028.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014030.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014030.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014030.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014032.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014032.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014032.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014157.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014157.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinibacter_ruber_M8_uid47323/NC_014157.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinispora_arenicola_CNS_205_uid58659/NC_009953.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinispora_arenicola_CNS_205_uid58659/NC_009953.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinispora_arenicola_CNS_205_uid58659/NC_009953.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinispora_tropica_CNB_440_uid58565/NC_009380.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinispora_tropica_CNB_440_uid58565/NC_009380.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salinispora_tropica_CNB_440_uid58565/NC_009380.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_bongori_NCTC_12419_uid70155/NC_015761.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_bongori_NCTC_12419_uid70155/NC_015761.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_bongori_NCTC_12419_uid70155/NC_015761.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_bongori_Sbon_167_uid213088/NC_021870.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_bongori_Sbon_167_uid213088/NC_021870.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_bongori_Sbon_167_uid213088/NC_021870.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_bongori_Sbon_167_uid213088/NC_021871.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_bongori_Sbon_167_uid213088/NC_021871.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_bongori_Sbon_167_uid213088/NC_021871.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Cubana_CFSAN002050_uid212973/NC_021818.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Cubana_CFSAN002050_uid212973/NC_021818.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Cubana_CFSAN002050_uid212973/NC_021818.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Cubana_CFSAN002050_uid212973/NC_021819.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Cubana_CFSAN002050_uid212973/NC_021819.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Cubana_CFSAN002050_uid212973/NC_021819.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Cubana_CFSAN002050_uid212973/NC_021845.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Cubana_CFSAN002050_uid212973/NC_021845.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Cubana_CFSAN002050_uid212973/NC_021845.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Heidelberg_CFSAN002069_uid212974/NC_021812.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Heidelberg_CFSAN002069_uid212974/NC_021812.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Heidelberg_CFSAN002069_uid212974/NC_021812.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Heidelberg_CFSAN002069_uid212974/NC_021813.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Heidelberg_CFSAN002069_uid212974/NC_021813.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Heidelberg_CFSAN002069_uid212974/NC_021813.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Heidelberg_CFSAN002069_uid212974/NC_021842.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Heidelberg_CFSAN002069_uid212974/NC_021842.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Heidelberg_CFSAN002069_uid212974/NC_021842.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021814.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021814.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021814.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021815.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021815.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021815.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021816.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021816.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021816.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021843.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021843.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_Serovar_Typhimurium_var__5__CFSAN001921_uid212972/NC_021843.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_arizonae_serovar_62_z4_z23__uid58191/NC_010067.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_arizonae_serovar_62_z4_z23__uid58191/NC_010067.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_arizonae_serovar_62_z4_z23__uid58191/NC_010067.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_4_5_12_i__08_1736_uid212969/NC_021820.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_4_5_12_i__08_1736_uid212969/NC_021820.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_4_5_12_i__08_1736_uid212969/NC_021820.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Agona_24249_uid230614/NC_022991.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Agona_24249_uid230614/NC_022991.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Agona_24249_uid230614/NC_022991.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Agona_SL483_uid59431/NC_011148.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Agona_SL483_uid59431/NC_011148.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Agona_SL483_uid59431/NC_011148.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Agona_SL483_uid59431/NC_011149.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Agona_SL483_uid59431/NC_011149.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Agona_SL483_uid59431/NC_011149.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bareilly_CFSAN000189_uid212971/NC_021817.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bareilly_CFSAN000189_uid212971/NC_021817.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bareilly_CFSAN000189_uid212971/NC_021817.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bareilly_CFSAN000189_uid212971/NC_021844.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bareilly_CFSAN000189_uid212971/NC_021844.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bareilly_CFSAN000189_uid212971/NC_021844.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bovismorbificans_3114_uid218006/NC_022241.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bovismorbificans_3114_uid218006/NC_022241.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bovismorbificans_3114_uid218006/NC_022241.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bovismorbificans_3114_uid218006/NC_022248.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bovismorbificans_3114_uid218006/NC_022248.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Bovismorbificans_3114_uid218006/NC_022248.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Choleraesuis_SC_B67_uid58017/NC_006855.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Choleraesuis_SC_B67_uid58017/NC_006855.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Choleraesuis_SC_B67_uid58017/NC_006855.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Choleraesuis_SC_B67_uid58017/NC_006856.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Choleraesuis_SC_B67_uid58017/NC_006856.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Choleraesuis_SC_B67_uid58017/NC_006856.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Choleraesuis_SC_B67_uid58017/NC_006905.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Choleraesuis_SC_B67_uid58017/NC_006905.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Choleraesuis_SC_B67_uid58017/NC_006905.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Dublin_CT_02021853_uid58917/NC_011204.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Dublin_CT_02021853_uid58917/NC_011204.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Dublin_CT_02021853_uid58917/NC_011204.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Dublin_CT_02021853_uid58917/NC_011205.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Dublin_CT_02021853_uid58917/NC_011205.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Dublin_CT_02021853_uid58917/NC_011205.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Enteritidis_P125109_uid59247/NC_011294.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Enteritidis_P125109_uid59247/NC_011294.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Enteritidis_P125109_uid59247/NC_011294.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Gallinarum_287_91_uid59249/NC_011274.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Gallinarum_287_91_uid59249/NC_011274.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Gallinarum_287_91_uid59249/NC_011274.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Gallinarum_Pullorum_CDC1983_67_uid217770/NC_022221.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Gallinarum_Pullorum_CDC1983_67_uid217770/NC_022221.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Gallinarum_Pullorum_CDC1983_67_uid217770/NC_022221.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Gallinarum_pullorum_RKS5078_uid87035/NC_016831.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Gallinarum_pullorum_RKS5078_uid87035/NC_016831.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Gallinarum_pullorum_RKS5078_uid87035/NC_016831.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021810.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021810.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021810.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021811.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021811.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021811.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021841.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021841.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021841.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021869.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021869.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_41578_uid212970/NC_021869.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_B182_uid162195/NC_017623.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_B182_uid162195/NC_017623.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_B182_uid162195/NC_017623.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_B182_uid162195/NC_017624.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_B182_uid162195/NC_017624.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_B182_uid162195/NC_017624.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_SL476_uid58973/NC_011081.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_SL476_uid58973/NC_011081.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_SL476_uid58973/NC_011081.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_SL476_uid58973/NC_011082.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_SL476_uid58973/NC_011082.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_SL476_uid58973/NC_011082.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_SL476_uid58973/NC_011083.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_SL476_uid58973/NC_011083.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Heidelberg_SL476_uid58973/NC_011083.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Javiana_CFSAN001992_uid190101/NC_020306.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Javiana_CFSAN001992_uid190101/NC_020306.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Javiana_CFSAN001992_uid190101/NC_020306.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Javiana_CFSAN001992_uid190101/NC_020307.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Javiana_CFSAN001992_uid190101/NC_020307.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Javiana_CFSAN001992_uid190101/NC_020307.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Javiana_CFSAN001992_uid190101/NC_020308.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Javiana_CFSAN001992_uid190101/NC_020308.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Javiana_CFSAN001992_uid190101/NC_020308.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_SL254_uid58831/NC_009140.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_SL254_uid58831/NC_009140.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_SL254_uid58831/NC_009140.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_SL254_uid58831/NC_011079.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_SL254_uid58831/NC_011079.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_SL254_uid58831/NC_011079.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_SL254_uid58831/NC_011080.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_SL254_uid58831/NC_011080.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_SL254_uid58831/NC_011080.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_USMARC_S3124_1_uid213895/NC_021902.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_USMARC_S3124_1_uid213895/NC_021902.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Newport_USMARC_S3124_1_uid213895/NC_021902.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_A_AKU_12601_uid59269/NC_011147.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_A_AKU_12601_uid59269/NC_011147.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_A_AKU_12601_uid59269/NC_011147.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_A_ATCC_9150_uid58201/NC_006511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_A_ATCC_9150_uid58201/NC_006511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_A_ATCC_9150_uid58201/NC_006511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_B_SPB7_uid59097/NC_010102.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_B_SPB7_uid59097/NC_010102.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_B_SPB7_uid59097/NC_010102.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_C_RKS4594_uid59063/NC_012124.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_C_RKS4594_uid59063/NC_012124.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_C_RKS4594_uid59063/NC_012124.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_C_RKS4594_uid59063/NC_012125.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_C_RKS4594_uid59063/NC_012125.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Paratyphi_C_RKS4594_uid59063/NC_012125.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Pullorum_S06004_uid214431/NC_021984.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Pullorum_S06004_uid214431/NC_021984.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Pullorum_S06004_uid214431/NC_021984.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Schwarzengrund_CVM19633_uid58915/NC_011092.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Schwarzengrund_CVM19633_uid58915/NC_011092.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Schwarzengrund_CVM19633_uid58915/NC_011092.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Schwarzengrund_CVM19633_uid58915/NC_011093.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Schwarzengrund_CVM19633_uid58915/NC_011093.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Schwarzengrund_CVM19633_uid58915/NC_011093.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Schwarzengrund_CVM19633_uid58915/NC_011094.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Schwarzengrund_CVM19633_uid58915/NC_011094.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Schwarzengrund_CVM19633_uid58915/NC_011094.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Thompson_RM6836_uid222802/NC_022525.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Thompson_RM6836_uid222802/NC_022525.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Thompson_RM6836_uid222802/NC_022525.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_CT18_uid57793/NC_003198.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_CT18_uid57793/NC_003198.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_CT18_uid57793/NC_003198.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_CT18_uid57793/NC_003384.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_CT18_uid57793/NC_003384.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_CT18_uid57793/NC_003384.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_CT18_uid57793/NC_003385.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_CT18_uid57793/NC_003385.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_CT18_uid57793/NC_003385.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_P_stx_12_uid87001/NC_016825.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_P_stx_12_uid87001/NC_016825.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_P_stx_12_uid87001/NC_016825.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_P_stx_12_uid87001/NC_016832.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_P_stx_12_uid87001/NC_016832.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_P_stx_12_uid87001/NC_016832.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_Ty21a_uid201427/NC_021176.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_Ty21a_uid201427/NC_021176.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_Ty21a_uid201427/NC_021176.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_Ty2_uid57973/NC_004631.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_Ty2_uid57973/NC_004631.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhi_Ty2_uid57973/NC_004631.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_14028S_uid86059/NC_016855.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_14028S_uid86059/NC_016855.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_14028S_uid86059/NC_016855.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_14028S_uid86059/NC_016856.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_14028S_uid86059/NC_016856.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_14028S_uid86059/NC_016856.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_798_uid158047/NC_017046.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_798_uid158047/NC_017046.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_798_uid158047/NC_017046.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_798_uid158047/NC_017054.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_798_uid158047/NC_017054.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_798_uid158047/NC_017054.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_D23580_uid86061/NC_016854.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_D23580_uid86061/NC_016854.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_D23580_uid86061/NC_016854.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_DT2_uid222818/NC_022544.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_DT2_uid222818/NC_022544.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_DT2_uid222818/NC_022544.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_LT2_uid57799/NC_003197.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_LT2_uid57799/NC_003197.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_LT2_uid57799/NC_003197.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_LT2_uid57799/NC_003277.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_LT2_uid57799/NC_003277.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_LT2_uid57799/NC_003277.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_016810.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_016810.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_016810.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_017718.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_017718.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_017718.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_017719.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_017719.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_017719.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_017720.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_017720.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_SL1344_uid86645/NC_017720.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_016857.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_016857.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_016857.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_016858.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_016858.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_016858.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_016859.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_016859.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_016859.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_017675.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_017675.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_ST4_74_uid84393/NC_017675.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_T000240_uid84397/NC_016860.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_T000240_uid84397/NC_016860.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_T000240_uid84397/NC_016860.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_T000240_uid84397/NC_016861.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_T000240_uid84397/NC_016861.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_T000240_uid84397/NC_016861.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_T000240_uid84397/NC_016862.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_T000240_uid84397/NC_016862.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_T000240_uid84397/NC_016862.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021151.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021151.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021151.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021155.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021155.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021155.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021156.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021156.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021156.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021157.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021157.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_U288_uid198746/NC_021157.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_UK_1_uid87049/NC_016863.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_UK_1_uid87049/NC_016863.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_UK_1_uid87049/NC_016863.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_UK_1_uid87049/NC_016864.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_UK_1_uid87049/NC_016864.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Typhimurium_UK_1_uid87049/NC_016864.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187069.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187069.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187069.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187072.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187072.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187072.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187073.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187073.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187073.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187074.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187074.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187074.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187075.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187075.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187075.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187076.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187076.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187076.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187078.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187078.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187078.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187080.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187080.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187080.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187081.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187081.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187081.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187082.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187082.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187082.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187083.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187083.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187083.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187084.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187084.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187084.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187085.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187085.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187085.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187086.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187086.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187086.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187087.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187087.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187087.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187088.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187088.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187088.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187089.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187089.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187089.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187090.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187090.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187090.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187091.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187091.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187091.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187092.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187092.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187092.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187093.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187093.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187093.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187094.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187094.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187094.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187097.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187097.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187097.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187098.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187098.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187098.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187100.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187100.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187100.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187101.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187101.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187101.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187102.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187102.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187102.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187103.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187103.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187103.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187105.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187105.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187105.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187106.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187106.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187106.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187107.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187107.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187107.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187108.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187108.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187108.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187109.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187109.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187109.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187110.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187110.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187110.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187111.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187111.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187111.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187112.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187112.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187112.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187113.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187113.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187113.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187114.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187114.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187114.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187115.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187115.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187115.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187116.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187116.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187116.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187117.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187117.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187117.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187118.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187118.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187118.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187119.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187119.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187119.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187120.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187120.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187120.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187121.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187121.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187121.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187122.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187122.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187122.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187123.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187123.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187123.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187124.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187124.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187124.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187125.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187125.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187125.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187126.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187126.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187126.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187127.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187127.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187127.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187128.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187128.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187128.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187129.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187129.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187129.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187130.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187130.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187130.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187131.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187131.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187131.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187132.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187132.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187132.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187134.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187134.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187134.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187135.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187135.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_enterica_serovar_Weltevreden_2007_60_3289_1_uid178014/NT_187135.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_typhimurium_DT104_uid223287/NC_022569.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_typhimurium_DT104_uid223287/NC_022569.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_typhimurium_DT104_uid223287/NC_022569.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_typhimurium_DT104_uid223287/NC_022570.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_typhimurium_DT104_uid223287/NC_022570.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Salmonella_typhimurium_DT104_uid223287/NC_022570.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sanguibacter_keddieii_DSM_10542_uid40845/NC_013521.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sanguibacter_keddieii_DSM_10542_uid40845/NC_013521.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sanguibacter_keddieii_DSM_10542_uid40845/NC_013521.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saprospira_grandis_Lewin_uid89375/NC_016936.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saprospira_grandis_Lewin_uid89375/NC_016936.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saprospira_grandis_Lewin_uid89375/NC_016936.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saprospira_grandis_Lewin_uid89375/NC_016940.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saprospira_grandis_Lewin_uid89375/NC_016940.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Saprospira_grandis_Lewin_uid89375/NC_016940.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sebaldella_termitidis_ATCC_33386_uid41865/NC_013517.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sebaldella_termitidis_ATCC_33386_uid41865/NC_013517.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sebaldella_termitidis_ATCC_33386_uid41865/NC_013517.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sebaldella_termitidis_ATCC_33386_uid41865/NC_013518.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sebaldella_termitidis_ATCC_33386_uid41865/NC_013518.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sebaldella_termitidis_ATCC_33386_uid41865/NC_013518.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sebaldella_termitidis_ATCC_33386_uid41865/NC_013519.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sebaldella_termitidis_ATCC_33386_uid41865/NC_013519.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sebaldella_termitidis_ATCC_33386_uid41865/NC_013519.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Segniliparus_rotundus_DSM_44985_uid49049/NC_014168.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Segniliparus_rotundus_DSM_44985_uid49049/NC_014168.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Segniliparus_rotundus_DSM_44985_uid49049/NC_014168.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017068.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017068.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017068.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017069.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017069.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017069.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017070.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017070.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017070.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017071.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017071.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017071.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017072.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017072.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017072.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017073.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017073.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017073.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017074.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017074.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017074.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017076.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017076.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017076.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017077.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017077.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017077.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017078.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017078.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_ruminantium_lactilytica_TAM6421_uid157247/NC_017078.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_sputigena_ATCC_35185_uid55329/NC_015437.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_sputigena_ATCC_35185_uid55329/NC_015437.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Selenomonas_sputigena_ATCC_35185_uid55329/NC_015437.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_AS12_uid67315/NC_015566.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_AS12_uid67315/NC_015566.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_AS12_uid67315/NC_015566.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_AS13_uid162065/NC_017573.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_AS13_uid162065/NC_017573.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_AS13_uid162065/NC_017573.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_ATCC_39006_uid218470/NC_022268.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_ATCC_39006_uid218470/NC_022268.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_ATCC_39006_uid218470/NC_022268.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_liquefaciens_ATCC_27592_uid212306/NC_021741.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_liquefaciens_ATCC_27592_uid212306/NC_021741.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_liquefaciens_ATCC_27592_uid212306/NC_021741.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_liquefaciens_ATCC_27592_uid212306/NC_021742.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_liquefaciens_ATCC_27592_uid212306/NC_021742.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_liquefaciens_ATCC_27592_uid212306/NC_021742.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_marcescens_FGI94_uid185180/NC_020064.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_marcescens_FGI94_uid185180/NC_020064.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_marcescens_FGI94_uid185180/NC_020064.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_marcescens_WW4_uid188478/NC_020211.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_marcescens_WW4_uid188478/NC_020211.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_marcescens_WW4_uid188478/NC_020211.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_marcescens_WW4_uid188478/NC_020212.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_marcescens_WW4_uid188478/NC_020212.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_marcescens_WW4_uid188478/NC_020212.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_odorifera_4Rx13_uid42253/NC_021591.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_odorifera_4Rx13_uid42253/NC_021591.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_odorifera_4Rx13_uid42253/NC_021591.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_odorifera_4Rx13_uid42253/NC_021594.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_odorifera_4Rx13_uid42253/NC_021594.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_odorifera_4Rx13_uid42253/NC_021594.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_plymuthica_AS9_uid67313/NC_015567.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_plymuthica_AS9_uid67313/NC_015567.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_plymuthica_AS9_uid67313/NC_015567.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_plymuthica_S13_uid210642/NC_021659.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_plymuthica_S13_uid210642/NC_021659.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_plymuthica_S13_uid210642/NC_021659.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_proteamaculans_568_uid58725/NC_009829.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_proteamaculans_568_uid58725/NC_009829.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_proteamaculans_568_uid58725/NC_009829.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_proteamaculans_568_uid58725/NC_009832.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_proteamaculans_568_uid58725/NC_009832.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_proteamaculans_568_uid58725/NC_009832.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_symbiotica__Cinara_cedri__uid82363/NC_016632.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_symbiotica__Cinara_cedri__uid82363/NC_016632.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Serratia_symbiotica__Cinara_cedri__uid82363/NC_016632.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_ANA_3_uid58347/NC_008573.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_ANA_3_uid58347/NC_008573.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_ANA_3_uid58347/NC_008573.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_ANA_3_uid58347/NC_008577.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_ANA_3_uid58347/NC_008577.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_ANA_3_uid58347/NC_008577.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_MR_4_uid58345/NC_008321.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_MR_4_uid58345/NC_008321.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_MR_4_uid58345/NC_008321.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_MR_7_uid58343/NC_008320.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_MR_7_uid58343/NC_008320.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_MR_7_uid58343/NC_008320.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_MR_7_uid58343/NC_008322.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_MR_7_uid58343/NC_008322.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_MR_7_uid58343/NC_008322.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_W3_18_1_uid58341/NC_008750.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_W3_18_1_uid58341/NC_008750.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_W3_18_1_uid58341/NC_008750.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_amazonensis_SB2B_uid58257/NC_008700.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_amazonensis_SB2B_uid58257/NC_008700.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_amazonensis_SB2B_uid58257/NC_008700.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_BA175_uid52601/NC_017570.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_BA175_uid52601/NC_017570.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_BA175_uid52601/NC_017570.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_BA175_uid52601/NC_017571.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_BA175_uid52601/NC_017571.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_BA175_uid52601/NC_017571.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_BA175_uid52601/NC_017572.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_BA175_uid52601/NC_017572.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_BA175_uid52601/NC_017572.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017577.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017577.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017577.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017578.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017578.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017578.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017579.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017579.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017579.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017580.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017580.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS117_uid162025/NC_017580.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009035.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009035.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009035.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009036.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009036.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009036.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009037.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009037.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009037.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009038.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009038.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009038.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009052.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009052.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS155_uid58259/NC_009052.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS185_uid58743/NC_009661.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS185_uid58743/NC_009661.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS185_uid58743/NC_009661.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS185_uid58743/NC_009665.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS185_uid58743/NC_009665.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS185_uid58743/NC_009665.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_009997.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_009997.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_009997.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_009998.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_009998.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_009998.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_009999.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_009999.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_009999.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_010000.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_010000.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS195_uid58261/NC_010000.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011663.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011663.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011663.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011664.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011664.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011664.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011665.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011665.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011665.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011668.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011668.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS223_uid58775/NC_011668.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS678_uid50553/NC_016901.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS678_uid50553/NC_016901.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS678_uid50553/NC_016901.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS678_uid50553/NC_016905.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS678_uid50553/NC_016905.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_baltica_OS678_uid50553/NC_016905.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_denitrificans_OS217_uid58263/NC_007954.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_denitrificans_OS217_uid58263/NC_007954.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_denitrificans_OS217_uid58263/NC_007954.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_frigidimarina_NCIMB_400_uid58265/NC_008345.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_frigidimarina_NCIMB_400_uid58265/NC_008345.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_frigidimarina_NCIMB_400_uid58265/NC_008345.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_halifaxensis_HAW_EB4_uid59007/NC_010334.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_halifaxensis_HAW_EB4_uid59007/NC_010334.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_halifaxensis_HAW_EB4_uid59007/NC_010334.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_loihica_PV_4_uid58349/NC_009092.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_loihica_PV_4_uid58349/NC_009092.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_loihica_PV_4_uid58349/NC_009092.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_oneidensis_MR_1_uid57949/NC_004347.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_oneidensis_MR_1_uid57949/NC_004347.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_oneidensis_MR_1_uid57949/NC_004347.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_oneidensis_MR_1_uid57949/NC_004349.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_oneidensis_MR_1_uid57949/NC_004349.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_oneidensis_MR_1_uid57949/NC_004349.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_pealeana_ATCC_700345_uid58705/NC_009901.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_pealeana_ATCC_700345_uid58705/NC_009901.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_pealeana_ATCC_700345_uid58705/NC_009901.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_piezotolerans_WP3_uid58745/NC_011566.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_piezotolerans_WP3_uid58745/NC_011566.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_piezotolerans_WP3_uid58745/NC_011566.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_putrefaciens_200_uid161927/NC_017566.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_putrefaciens_200_uid161927/NC_017566.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_putrefaciens_200_uid161927/NC_017566.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_putrefaciens_CN_32_uid58267/NC_009438.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_putrefaciens_CN_32_uid58267/NC_009438.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_putrefaciens_CN_32_uid58267/NC_009438.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_sediminis_HAW_EB3_uid58835/NC_009831.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_sediminis_HAW_EB3_uid58835/NC_009831.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_sediminis_HAW_EB3_uid58835/NC_009831.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_violacea_DSS12_uid47085/NC_014012.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_violacea_DSS12_uid47085/NC_014012.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_violacea_DSS12_uid47085/NC_014012.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_woodyi_ATCC_51908_uid58721/NC_010506.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_woodyi_ATCC_51908_uid58721/NC_010506.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shewanella_woodyi_ATCC_51908_uid58721/NC_010506.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010656.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010656.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010656.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010657.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010657.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010657.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010658.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010658.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010658.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010659.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010659.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010659.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010660.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010660.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010660.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010672.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010672.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_CDC_3083_94_uid58415/NC_010672.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_Sb227_uid58215/NC_007608.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_Sb227_uid58215/NC_007608.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_Sb227_uid58215/NC_007608.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_Sb227_uid58215/NC_007613.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_Sb227_uid58215/NC_007613.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_boydii_Sb227_uid58215/NC_007613.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_1617_uid229875/NC_022899.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_1617_uid229875/NC_022899.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_1617_uid229875/NC_022899.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_1617_uid229875/NC_022912.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_1617_uid229875/NC_022912.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_1617_uid229875/NC_022912.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_Sd197_uid58213/NC_007606.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_Sd197_uid58213/NC_007606.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_Sd197_uid58213/NC_007606.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_Sd197_uid58213/NC_007607.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_Sd197_uid58213/NC_007607.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_Sd197_uid58213/NC_007607.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_Sd197_uid58213/NC_009344.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_Sd197_uid58213/NC_009344.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_dysenteriae_Sd197_uid58213/NC_009344.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017319.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017319.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017319.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017320.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017320.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017320.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017321.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017321.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017321.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017328.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017328.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017328.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017329.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017329.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017329.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017330.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017330.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2002017_uid159233/NC_017330.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2a_2457T_uid57991/NC_004741.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2a_2457T_uid57991/NC_004741.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2a_2457T_uid57991/NC_004741.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2a_301_uid62907/NC_004337.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2a_301_uid62907/NC_004337.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2a_301_uid62907/NC_004337.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2a_301_uid62907/NC_004851.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2a_301_uid62907/NC_004851.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_2a_301_uid62907/NC_004851.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_5_8401_uid58583/NC_008258.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_5_8401_uid58583/NC_008258.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_flexneri_5_8401_uid58583/NC_008258.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016822.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016822.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016822.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016823.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016823.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016823.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016824.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016824.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016824.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016833.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016833.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016833.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016834.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016834.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_53G_uid84383/NC_016834.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_007384.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_007384.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_007384.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_007385.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_007385.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_007385.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_009345.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_009345.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_009345.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_009346.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_009346.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_009346.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_009347.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_009347.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Shigella_sonnei_Ss046_uid58217/NC_009347.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sideroxydans_lithotrophicus_ES_1_uid46801/NC_013959.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sideroxydans_lithotrophicus_ES_1_uid46801/NC_013959.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sideroxydans_lithotrophicus_ES_1_uid46801/NC_013959.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Simiduia_agarivorans_SA1_uid177713/NC_018868.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Simiduia_agarivorans_SA1_uid177713/NC_018868.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Simiduia_agarivorans_SA1_uid177713/NC_018868.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Simkania_negevensis_Z_uid68451/NC_015710.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Simkania_negevensis_Z_uid68451/NC_015710.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Simkania_negevensis_Z_uid68451/NC_015710.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Simkania_negevensis_Z_uid68451/NC_015713.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Simkania_negevensis_Z_uid68451/NC_015713.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Simkania_negevensis_Z_uid68451/NC_015713.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019892.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019892.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019892.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019893.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019893.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019893.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019894.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019894.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019894.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019895.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019895.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Singulisphaera_acidiphila_DSM_18658_uid81777/NC_019895.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016812.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016812.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016812.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016813.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016813.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016813.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016814.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016814.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016814.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016815.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016815.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016815.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016836.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016836.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_016836.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018293.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018293.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018293.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018294.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018294.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018294.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018299.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018299.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018299.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018303.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018303.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018303.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018304.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018304.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NC_018304.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187146.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187146.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187146.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187147.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187147.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187147.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187148.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187148.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187148.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187149.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187149.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187149.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187150.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187150.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_HH103_uid86865/NT_187150.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018000.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018000.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018000.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018179.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018179.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018179.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018180.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018180.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018180.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018181.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018181.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018181.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018182.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018182.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018182.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018183.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018183.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018183.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018184.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018184.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018184.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018185.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018185.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018185.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018186.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018186.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018186.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018187.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018187.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018187.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018188.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018188.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018188.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018189.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018189.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018189.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018191.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018191.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018191.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018192.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018192.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018192.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018193.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018193.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018193.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018194.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018194.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018194.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018195.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018195.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018195.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018196.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018196.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018196.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018197.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018197.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NC_018197.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187151.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187151.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187151.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187152.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187152.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187152.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187153.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187153.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187153.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187154.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187154.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187154.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187155.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187155.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187155.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187156.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187156.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187156.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187157.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187157.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187157.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187158.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187158.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187158.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187159.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187159.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187159.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187160.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187160.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187160.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187161.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187161.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187161.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187163.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187163.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187163.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187164.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187164.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187164.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187165.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187165.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187165.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187166.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187166.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187166.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187167.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187167.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187167.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187168.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187168.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187168.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187169.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187169.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_fredii_USDA_257_uid168059/NT_187169.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009620.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009620.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009620.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009621.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009621.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009621.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009622.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009622.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009622.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009636.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009636.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_medicae_WSM419_uid58549/NC_009636.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_1021_uid57603/NC_003037.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_1021_uid57603/NC_003037.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_1021_uid57603/NC_003037.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_1021_uid57603/NC_003047.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_1021_uid57603/NC_003047.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_1021_uid57603/NC_003047.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_1021_uid57603/NC_003078.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_1021_uid57603/NC_003078.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_1021_uid57603/NC_003078.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_2011_uid193772/NC_020527.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_2011_uid193772/NC_020527.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_2011_uid193772/NC_020527.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_2011_uid193772/NC_020528.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_2011_uid193772/NC_020528.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_2011_uid193772/NC_020528.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_2011_uid193772/NC_020560.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_2011_uid193772/NC_020560.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_2011_uid193772/NC_020560.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015590.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015590.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015590.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015591.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015591.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015591.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015592.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015592.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015592.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015596.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015596.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015596.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015597.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015597.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_AK83_uid52607/NC_015597.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_BL225C_uid52605/NC_017322.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_BL225C_uid52605/NC_017322.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_BL225C_uid52605/NC_017322.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_BL225C_uid52605/NC_017323.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_BL225C_uid52605/NC_017323.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_BL225C_uid52605/NC_017323.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_BL225C_uid52605/NC_017324.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_BL225C_uid52605/NC_017324.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_BL225C_uid52605/NC_017324.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019845.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019845.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019845.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019846.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019846.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019846.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019847.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019847.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019847.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019848.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019848.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019848.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019849.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019849.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_GR4_uid184823/NC_019849.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018682.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018682.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018682.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018683.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018683.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018683.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018700.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018700.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018700.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018701.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018701.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_Rm41_uid176372/NC_018701.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_SM11_uid159685/NC_017325.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_SM11_uid159685/NC_017325.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_SM11_uid159685/NC_017325.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_SM11_uid159685/NC_017326.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_SM11_uid159685/NC_017326.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_SM11_uid159685/NC_017326.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_SM11_uid159685/NC_017327.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_SM11_uid159685/NC_017327.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sinorhizobium_meliloti_SM11_uid159685/NC_017327.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Slackia_heliotrinireducens_DSM_20476_uid59051/NC_013165.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Slackia_heliotrinireducens_DSM_20476_uid59051/NC_013165.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Slackia_heliotrinireducens_DSM_20476_uid59051/NC_013165.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007712.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007712.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007712.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007713.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007713.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007713.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007714.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007714.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007714.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007715.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007715.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sodalis_glossinidius__morsitans__uid58553/NC_007715.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Solibacillus_silvestris_StLB046_uid168516/NC_018065.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Solibacillus_silvestris_StLB046_uid168516/NC_018065.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Solibacillus_silvestris_StLB046_uid168516/NC_018065.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Solibacillus_silvestris_StLB046_uid168516/NC_018069.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Solibacillus_silvestris_StLB046_uid168516/NC_018069.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Solibacillus_silvestris_StLB046_uid168516/NC_018069.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Solitalea_canadensis_DSM_3403_uid81783/NC_017770.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Solitalea_canadensis_DSM_3403_uid81783/NC_017770.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Solitalea_canadensis_DSM_3403_uid81783/NC_017770.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sorangium_cellulosum_So0157_2_uid210741/NC_021658.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sorangium_cellulosum_So0157_2_uid210741/NC_021658.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sorangium_cellulosum_So0157_2_uid210741/NC_021658.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sorangium_cellulosum__So_ce_56__uid61629/NC_010162.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sorangium_cellulosum__So_ce_56__uid61629/NC_010162.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sorangium_cellulosum__So_ce_56__uid61629/NC_010162.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphaerobacter_thermophilus_DSM_20745_uid41997/NC_013523.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphaerobacter_thermophilus_DSM_20745_uid41997/NC_013523.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphaerobacter_thermophilus_DSM_20745_uid41997/NC_013523.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphaerobacter_thermophilus_DSM_20745_uid41997/NC_013524.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphaerobacter_thermophilus_DSM_20745_uid41997/NC_013524.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphaerobacter_thermophilus_DSM_20745_uid41997/NC_013524.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphaerochaeta_pleomorpha_Grapes_uid82365/NC_016633.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphaerochaeta_pleomorpha_Grapes_uid82365/NC_016633.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphaerochaeta_pleomorpha_Grapes_uid82365/NC_016633.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobacterium_21_uid64755/NC_015277.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobacterium_21_uid64755/NC_015277.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobacterium_21_uid64755/NC_015277.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_SYK_6_uid73353/NC_015974.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_SYK_6_uid73353/NC_015974.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_SYK_6_uid73353/NC_015974.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_SYK_6_uid73353/NC_015976.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_SYK_6_uid73353/NC_015976.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_SYK_6_uid73353/NC_015976.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_chlorophenolicum_L_1_uid52597/NC_015593.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_chlorophenolicum_L_1_uid52597/NC_015593.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_chlorophenolicum_L_1_uid52597/NC_015593.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_chlorophenolicum_L_1_uid52597/NC_015594.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_chlorophenolicum_L_1_uid52597/NC_015594.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_chlorophenolicum_L_1_uid52597/NC_015594.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_chlorophenolicum_L_1_uid52597/NC_015595.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_chlorophenolicum_L_1_uid52597/NC_015595.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_chlorophenolicum_L_1_uid52597/NC_015595.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014005.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014005.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014005.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014006.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014006.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014006.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014007.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014007.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014007.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014009.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014009.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014009.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014013.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014013.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingobium_japonicum_UT26S_uid47077/NC_014013.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020542.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020542.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020542.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020543.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020543.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020543.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020544.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020544.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020544.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020561.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020561.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020561.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020562.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020562.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020562.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020563.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020563.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_MM_1_uid193771/NC_020563.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_wittichii_RW1_uid58691/NC_009507.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_wittichii_RW1_uid58691/NC_009507.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_wittichii_RW1_uid58691/NC_009507.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_wittichii_RW1_uid58691/NC_009508.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_wittichii_RW1_uid58691/NC_009508.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_wittichii_RW1_uid58691/NC_009508.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_wittichii_RW1_uid58691/NC_009511.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_wittichii_RW1_uid58691/NC_009511.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingomonas_wittichii_RW1_uid58691/NC_009511.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingopyxis_alaskensis_RB2256_uid58351/NC_008036.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingopyxis_alaskensis_RB2256_uid58351/NC_008036.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingopyxis_alaskensis_RB2256_uid58351/NC_008036.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingopyxis_alaskensis_RB2256_uid58351/NC_008048.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingopyxis_alaskensis_RB2256_uid58351/NC_008048.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sphingopyxis_alaskensis_RB2256_uid58351/NC_008048.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiribacter_UAH_SP71_uid226111/NC_022664.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiribacter_UAH_SP71_uid226111/NC_022664.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiribacter_UAH_SP71_uid226111/NC_022664.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_Buddy_uid63633/NC_015152.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_Buddy_uid63633/NC_015152.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_Buddy_uid63633/NC_015152.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_L21_RPul_D2_uid231658/NC_023035.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_L21_RPul_D2_uid231658/NC_023035.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_L21_RPul_D2_uid231658/NC_023035.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_africana_DSM_8902_uid81779/NC_017098.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_africana_DSM_8902_uid81779/NC_017098.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_africana_DSM_8902_uid81779/NC_017098.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_caldaria_DSM_7334_uid68753/NC_015732.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_caldaria_DSM_7334_uid68753/NC_015732.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_caldaria_DSM_7334_uid68753/NC_015732.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_coccoides_DSM_17374_uid66331/NC_015436.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_coccoides_DSM_17374_uid66331/NC_015436.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_coccoides_DSM_17374_uid66331/NC_015436.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_smaragdinae_DSM_11293_uid51369/NC_014364.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_smaragdinae_DSM_11293_uid51369/NC_014364.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_smaragdinae_DSM_11293_uid51369/NC_014364.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_thermophila_DSM_6192_uid53037/NC_014484.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_thermophila_DSM_6192_uid53037/NC_014484.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_thermophila_DSM_6192_uid53037/NC_014484.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_thermophila_DSM_6578_uid162041/NC_017583.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_thermophila_DSM_6578_uid162041/NC_017583.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirochaeta_thermophila_DSM_6578_uid162041/NC_017583.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_apis_B31_uid230613/NC_022998.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_apis_B31_uid230613/NC_022998.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_apis_B31_uid230613/NC_022998.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_chrysopicola_DF_1_uid205053/NC_021280.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_chrysopicola_DF_1_uid205053/NC_021280.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_chrysopicola_DF_1_uid205053/NC_021280.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_diminutum_CUAS_1_uid212976/NC_021833.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_diminutum_CUAS_1_uid212976/NC_021833.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_diminutum_CUAS_1_uid212976/NC_021833.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_syrphidicola_EA_1_uid205054/NC_021284.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_syrphidicola_EA_1_uid205054/NC_021284.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_syrphidicola_EA_1_uid205054/NC_021284.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_taiwanense_CT_1_uid212975/NC_021832.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_taiwanense_CT_1_uid212975/NC_021832.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_taiwanense_CT_1_uid212975/NC_021832.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_taiwanense_CT_1_uid212975/NC_021846.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_taiwanense_CT_1_uid212975/NC_021846.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spiroplasma_taiwanense_CT_1_uid212975/NC_021846.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013730.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013730.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013730.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013731.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013731.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013731.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013732.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013732.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013732.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013733.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013733.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013733.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013734.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013734.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013734.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013735.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013735.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013735.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013736.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013736.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013736.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013737.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013737.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013737.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013738.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013738.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Spirosoma_linguale_DSM_74_uid43413/NC_013738.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stackebrandtia_nassauensis_DSM_44728_uid46663/NC_013947.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stackebrandtia_nassauensis_DSM_44728_uid46663/NC_013947.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stackebrandtia_nassauensis_DSM_44728_uid46663/NC_013947.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019748.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019748.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019748.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019749.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019749.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019749.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019750.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019750.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019750.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019765.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019765.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019765.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019766.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019766.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_019766.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_020052.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_020052.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stanieria_cyanosphaera_PCC_7437_uid183115/NC_020052.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_04_02981_uid161969/NC_017340.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_04_02981_uid161969/NC_017340.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_04_02981_uid161969/NC_017340.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_08BA02176_uid175257/NC_018608.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_08BA02176_uid175257/NC_018608.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_08BA02176_uid175257/NC_018608.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_11819_97_uid159981/NC_017350.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_11819_97_uid159981/NC_017350.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_11819_97_uid159981/NC_017350.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_11819_97_uid159981/NC_017351.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_11819_97_uid159981/NC_017351.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_11819_97_uid159981/NC_017351.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_55_2053_uid55909/NC_022113.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_55_2053_uid55909/NC_022113.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_55_2053_uid55909/NC_022113.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_55_2053_uid55909/NC_022126.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_55_2053_uid55909/NC_022126.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_55_2053_uid55909/NC_022126.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_6850_uid217772/NC_022222.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_6850_uid217772/NC_022222.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_6850_uid217772/NC_022222.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_71193_uid162141/NC_017673.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_71193_uid162141/NC_017673.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_71193_uid162141/NC_017673.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Bmb9393_uid210640/NC_021657.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Bmb9393_uid210640/NC_021657.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Bmb9393_uid210640/NC_021657.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Bmb9393_uid210640/NC_021670.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Bmb9393_uid210640/NC_021670.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Bmb9393_uid210640/NC_021670.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CC45_uid209174/NC_021552.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CC45_uid209174/NC_021552.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CC45_uid209174/NC_021552.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CC45_uid209174/NC_021554.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CC45_uid209174/NC_021554.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CC45_uid209174/NC_021554.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CN1_uid217769/NC_022226.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CN1_uid217769/NC_022226.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CN1_uid217769/NC_022226.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CN1_uid217769/NC_022227.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CN1_uid217769/NC_022227.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CN1_uid217769/NC_022227.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CN1_uid217769/NC_022228.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CN1_uid217769/NC_022228.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_CN1_uid217769/NC_022228.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_COL_uid57797/NC_002951.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_COL_uid57797/NC_002951.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_COL_uid57797/NC_002951.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_COL_uid57797/NC_006629.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_COL_uid57797/NC_006629.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_COL_uid57797/NC_006629.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ECT_R_2_uid159389/NC_017343.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ECT_R_2_uid159389/NC_017343.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ECT_R_2_uid159389/NC_017343.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ECT_R_2_uid159389/NC_017344.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ECT_R_2_uid159389/NC_017344.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ECT_R_2_uid159389/NC_017344.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ECT_R_2_uid159389/NC_017346.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ECT_R_2_uid159389/NC_017346.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ECT_R_2_uid159389/NC_017346.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED133_uid159689/NC_017337.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED133_uid159689/NC_017337.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED133_uid159689/NC_017337.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013450.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013450.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013450.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013451.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013451.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013451.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013452.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013452.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013452.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013453.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013453.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ED98_uid41455/NC_013453.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_HO_5096_0412_uid162163/NC_017763.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_HO_5096_0412_uid162163/NC_017763.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_HO_5096_0412_uid162163/NC_017763.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH1_uid58457/NC_009619.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH1_uid58457/NC_009619.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH1_uid58457/NC_009619.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH1_uid58457/NC_009632.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH1_uid58457/NC_009632.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH1_uid58457/NC_009632.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH9_uid58455/NC_009477.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH9_uid58455/NC_009477.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH9_uid58455/NC_009477.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH9_uid58455/NC_009487.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH9_uid58455/NC_009487.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JH9_uid58455/NC_009487.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JKD6008_uid159855/NC_017341.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JKD6008_uid159855/NC_017341.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JKD6008_uid159855/NC_017341.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JKD6159_uid159691/NC_017338.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JKD6159_uid159691/NC_017338.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JKD6159_uid159691/NC_017338.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JKD6159_uid159691/NC_017339.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JKD6159_uid159691/NC_017339.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_JKD6159_uid159691/NC_017339.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_LGA251_uid159391/NC_017348.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_LGA251_uid159391/NC_017348.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_LGA251_uid159391/NC_017348.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_LGA251_uid159391/NC_017349.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_LGA251_uid159391/NC_017349.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_LGA251_uid159391/NC_017349.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_M013_uid88065/NC_016928.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_M013_uid88065/NC_016928.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_M013_uid88065/NC_016928.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_M1_uid197263/NC_021059.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_M1_uid197263/NC_021059.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_M1_uid197263/NC_021059.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_M1_uid197263/NC_021060.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_M1_uid197263/NC_021060.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_M1_uid197263/NC_021060.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MRSA252_uid57839/NC_002952.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MRSA252_uid57839/NC_002952.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MRSA252_uid57839/NC_002952.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSHR1132_uid89393/NC_016941.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSHR1132_uid89393/NC_016941.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSHR1132_uid89393/NC_016941.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSHR1132_uid89393/NC_016942.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSHR1132_uid89393/NC_016942.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSHR1132_uid89393/NC_016942.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSSA476_uid57841/NC_002953.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSSA476_uid57841/NC_002953.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSSA476_uid57841/NC_002953.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSSA476_uid57841/NC_005951.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSSA476_uid57841/NC_005951.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MSSA476_uid57841/NC_005951.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MW2_uid57903/NC_003923.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MW2_uid57903/NC_003923.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_MW2_uid57903/NC_003923.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Mu3_uid58817/NC_009782.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Mu3_uid58817/NC_009782.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Mu3_uid58817/NC_009782.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Mu50_uid57835/NC_002758.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Mu50_uid57835/NC_002758.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Mu50_uid57835/NC_002758.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Mu50_uid57835/NC_002774.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Mu50_uid57835/NC_002774.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Mu50_uid57835/NC_002774.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_N315_uid57837/NC_002745.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_N315_uid57837/NC_002745.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_N315_uid57837/NC_002745.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_N315_uid57837/NC_003140.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_N315_uid57837/NC_003140.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_N315_uid57837/NC_003140.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_NCTC_8325_uid57795/NC_007795.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_NCTC_8325_uid57795/NC_007795.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_NCTC_8325_uid57795/NC_007795.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Newman_uid58839/NC_009641.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Newman_uid58839/NC_009641.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Newman_uid58839/NC_009641.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_RF122_uid57661/NC_007622.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_RF122_uid57661/NC_007622.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_RF122_uid57661/NC_007622.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_SA40_uid221289/NC_022443.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_SA40_uid221289/NC_022443.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_SA40_uid221289/NC_022443.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_SA957_uid221288/NC_022442.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_SA957_uid221288/NC_022442.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_SA957_uid221288/NC_022442.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10388_uid193754/NC_020529.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10388_uid193754/NC_020529.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10388_uid193754/NC_020529.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10388_uid193754/NC_020530.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10388_uid193754/NC_020530.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10388_uid193754/NC_020530.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10497_uid193755/NC_020531.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10497_uid193755/NC_020531.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10497_uid193755/NC_020531.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10497_uid193755/NC_020564.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10497_uid193755/NC_020564.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_10497_uid193755/NC_020564.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_15532_uid193756/NC_020532.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_15532_uid193756/NC_020532.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_15532_uid193756/NC_020532.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_15532_uid193756/NC_020565.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_15532_uid193756/NC_020565.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_15532_uid193756/NC_020565.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_16035_uid193757/NC_020533.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_16035_uid193757/NC_020533.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_16035_uid193757/NC_020533.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_16035_uid193757/NC_020534.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_16035_uid193757/NC_020534.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_16035_uid193757/NC_020534.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18412_uid193760/NC_020537.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18412_uid193760/NC_020537.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18412_uid193760/NC_020537.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18412_uid193760/NC_020538.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18412_uid193760/NC_020538.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18412_uid193760/NC_020538.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18583_uid193761/NC_020539.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18583_uid193761/NC_020539.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18583_uid193761/NC_020539.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18583_uid193761/NC_020568.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18583_uid193761/NC_020568.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST228_18583_uid193761/NC_020568.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017333.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017333.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017333.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017334.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017334.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017334.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017335.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017335.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017335.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017336.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017336.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_ST398_uid159247/NC_017336.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_T0131_uid159861/NC_017347.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_T0131_uid159861/NC_017347.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_T0131_uid159861/NC_017347.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TCH60_uid159859/NC_017342.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TCH60_uid159859/NC_017342.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TCH60_uid159859/NC_017342.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TCH60_uid159859/NC_017345.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TCH60_uid159859/NC_017345.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TCH60_uid159859/NC_017345.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TW20_uid159241/NC_017331.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TW20_uid159241/NC_017331.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TW20_uid159241/NC_017331.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TW20_uid159241/NC_017332.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TW20_uid159241/NC_017332.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TW20_uid159241/NC_017332.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TW20_uid159241/NC_017352.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TW20_uid159241/NC_017352.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_TW20_uid159241/NC_017352.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007790.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007790.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007790.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007791.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007791.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007791.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007792.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007792.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007792.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007793.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007793.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_FPR3757_uid58555/NC_007793.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_TCH1516_uid58925/NC_010063.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_TCH1516_uid58925/NC_010063.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_TCH1516_uid58925/NC_010063.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_TCH1516_uid58925/NC_010079.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_TCH1516_uid58925/NC_010079.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_TCH1516_uid58925/NC_010079.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_TCH1516_uid58925/NC_012417.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_TCH1516_uid58925/NC_012417.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_USA300_TCH1516_uid58925/NC_012417.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_VC40_uid88071/NC_016912.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_VC40_uid88071/NC_016912.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_VC40_uid88071/NC_016912.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Z172_uid225604/NC_022604.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Z172_uid225604/NC_022604.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Z172_uid225604/NC_022604.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Z172_uid225604/NC_022605.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Z172_uid225604/NC_022605.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Z172_uid225604/NC_022605.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Z172_uid225604/NC_022610.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Z172_uid225604/NC_022610.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_Z172_uid225604/NC_022610.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193758/NC_020535.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193758/NC_020535.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193758/NC_020535.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193758/NC_020566.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193758/NC_020566.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193758/NC_020566.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193759/NC_020536.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193759/NC_020536.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193759/NC_020536.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193759/NC_020567.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193759/NC_020567.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_aureus_uid193759/NC_020567.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_carnosus_TM300_uid59401/NC_012121.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_carnosus_TM300_uid59401/NC_012121.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_carnosus_TM300_uid59401/NC_012121.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_004461.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_004461.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_004461.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005003.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005003.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005003.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005004.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005004.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005004.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005005.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005005.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005005.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005006.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005006.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005006.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005007.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005007.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005007.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005008.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005008.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_ATCC_12228_uid57861/NC_005008.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_RP62A_uid57663/NC_002976.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_RP62A_uid57663/NC_002976.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_RP62A_uid57663/NC_002976.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_RP62A_uid57663/NC_006663.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_RP62A_uid57663/NC_006663.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_epidermidis_RP62A_uid57663/NC_006663.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007168.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007168.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007168.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007169.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007169.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007169.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007170.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007170.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007170.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007171.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007171.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_haemolyticus_JCSC1435_uid62919/NC_007171.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_lugdunensis_HKU09_01_uid46233/NC_013893.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_lugdunensis_HKU09_01_uid46233/NC_013893.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_lugdunensis_HKU09_01_uid46233/NC_013893.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_lugdunensis_N920143_uid162143/NC_017353.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_lugdunensis_N920143_uid162143/NC_017353.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_lugdunensis_N920143_uid162143/NC_017353.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_pasteuri_SP1_uid226267/NC_022737.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_pasteuri_SP1_uid226267/NC_022737.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_pasteuri_SP1_uid226267/NC_022737.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_pseudintermedius_ED99_uid162109/NC_017568.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_pseudintermedius_ED99_uid162109/NC_017568.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_pseudintermedius_ED99_uid162109/NC_017568.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_pseudintermedius_HKU10_03_uid62125/NC_014925.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_pseudintermedius_HKU10_03_uid62125/NC_014925.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_pseudintermedius_HKU10_03_uid62125/NC_014925.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_saprophyticus_ATCC_15305_uid58411/NC_007350.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_saprophyticus_ATCC_15305_uid58411/NC_007350.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_saprophyticus_ATCC_15305_uid58411/NC_007350.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_saprophyticus_ATCC_15305_uid58411/NC_007351.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_saprophyticus_ATCC_15305_uid58411/NC_007351.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_saprophyticus_ATCC_15305_uid58411/NC_007351.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_saprophyticus_ATCC_15305_uid58411/NC_007352.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_saprophyticus_ATCC_15305_uid58411/NC_007352.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_saprophyticus_ATCC_15305_uid58411/NC_007352.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020164.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020164.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020164.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020165.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020165.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020165.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020264.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020264.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020264.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020265.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020265.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020265.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020266.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020266.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020266.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020267.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020267.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020267.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020268.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020268.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020268.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020269.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020269.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020269.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020274.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020274.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Staphylococcus_warneri_SG1_uid187059/NC_020274.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Starkeya_novella_DSM_506_uid48815/NC_014217.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Starkeya_novella_DSM_506_uid48815/NC_014217.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Starkeya_novella_DSM_506_uid48815/NC_014217.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_D457_uid162199/NC_017671.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_D457_uid162199/NC_017671.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_D457_uid162199/NC_017671.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_JV3_uid72473/NC_015947.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_JV3_uid72473/NC_015947.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_JV3_uid72473/NC_015947.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_K279a_uid61647/NC_010943.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_K279a_uid61647/NC_010943.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_K279a_uid61647/NC_010943.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_R551_3_uid58657/NC_011071.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_R551_3_uid58657/NC_011071.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stenotrophomonas_maltophilia_R551_3_uid58657/NC_011071.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stigmatella_aurantiaca_DW4_3_1_uid158509/NC_014623.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stigmatella_aurantiaca_DW4_3_1_uid158509/NC_014623.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Stigmatella_aurantiaca_DW4_3_1_uid158509/NC_014623.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Strawberry_lethal_yellows_phytoplasma__CPA__NZSb11_uid203392/NC_021236.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Strawberry_lethal_yellows_phytoplasma__CPA__NZSb11_uid203392/NC_021236.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Strawberry_lethal_yellows_phytoplasma__CPA__NZSb11_uid203392/NC_021236.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptobacillus_moniliformis_DSM_12112_uid41863/NC_013515.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptobacillus_moniliformis_DSM_12112_uid41863/NC_013515.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptobacillus_moniliformis_DSM_12112_uid41863/NC_013515.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptobacillus_moniliformis_DSM_12112_uid41863/NC_013516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptobacillus_moniliformis_DSM_12112_uid41863/NC_013516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptobacillus_moniliformis_DSM_12112_uid41863/NC_013516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_I_G2_uid224251/NC_022584.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_I_G2_uid224251/NC_022584.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_I_G2_uid224251/NC_022584.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_I_P16_uid224252/NC_022582.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_I_P16_uid224252/NC_022582.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_I_P16_uid224252/NC_022582.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_09mas018883_uid208674/NC_021485.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_09mas018883_uid208674/NC_021485.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_09mas018883_uid208674/NC_021485.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_2603V_R_uid57943/NC_004116.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_2603V_R_uid57943/NC_004116.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_2603V_R_uid57943/NC_004116.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_2_22_uid202215/NC_021195.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_2_22_uid202215/NC_021195.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_2_22_uid202215/NC_021195.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_A909_uid57935/NC_007432.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_A909_uid57935/NC_007432.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_A909_uid57935/NC_007432.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_GD201008_001_uid175780/NC_018646.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_GD201008_001_uid175780/NC_018646.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_GD201008_001_uid175780/NC_018646.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_ILRI005_uid208676/NC_021486.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_ILRI005_uid208676/NC_021486.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_ILRI005_uid208676/NC_021486.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_ILRI112_uid208675/NC_021507.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_ILRI112_uid208675/NC_021507.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_ILRI112_uid208675/NC_021507.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_NEM316_uid61585/NC_004368.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_NEM316_uid61585/NC_004368.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_NEM316_uid61585/NC_004368.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_SA20_06_uid178722/NC_019048.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_SA20_06_uid178722/NC_019048.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_agalactiae_SA20_06_uid178722/NC_019048.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_anginosus_C1051_uid218003/NC_022244.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_anginosus_C1051_uid218003/NC_022244.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_anginosus_C1051_uid218003/NC_022244.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_anginosus_C238_uid218004/NC_022239.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_anginosus_C238_uid218004/NC_022239.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_anginosus_C238_uid218004/NC_022239.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_constellatus_pharyngis_C1050_uid218002/NC_022238.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_constellatus_pharyngis_C1050_uid218002/NC_022238.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_constellatus_pharyngis_C1050_uid218002/NC_022238.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_constellatus_pharyngis_C232_uid217998/NC_022236.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_constellatus_pharyngis_C232_uid217998/NC_022236.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_constellatus_pharyngis_C232_uid217998/NC_022236.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_constellatus_pharyngis_C818_uid218001/NC_022245.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_constellatus_pharyngis_C818_uid218001/NC_022245.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_constellatus_pharyngis_C818_uid218001/NC_022245.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_167_uid222822/NC_022532.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_167_uid222822/NC_022532.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_167_uid222822/NC_022532.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_AC_2713_uid178644/NC_019042.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_AC_2713_uid178644/NC_019042.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_AC_2713_uid178644/NC_019042.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_ATCC_12394_uid161979/NC_017567.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_ATCC_12394_uid161979/NC_017567.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_ATCC_12394_uid161979/NC_017567.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_GGS_124_uid59103/NC_012891.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_GGS_124_uid59103/NC_012891.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_GGS_124_uid59103/NC_012891.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_RE378_uid176684/NC_018712.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_RE378_uid176684/NC_018712.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_dysgalactiae_equisimilis_RE378_uid176684/NC_018712.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_4047_uid59259/NC_012471.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_4047_uid59259/NC_012471.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_4047_uid59259/NC_012471.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_zooepidemicus_ATCC_35246_uid162155/NC_017582.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_zooepidemicus_ATCC_35246_uid162155/NC_017582.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_zooepidemicus_ATCC_35246_uid162155/NC_017582.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_zooepidemicus_MGCS10565_uid59263/NC_011134.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_zooepidemicus_MGCS10565_uid59263/NC_011134.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_zooepidemicus_MGCS10565_uid59263/NC_011134.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_zooepidemicus_uid59261/NC_012470.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_zooepidemicus_uid59261/NC_012470.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_equi_zooepidemicus_uid59261/NC_012470.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_ATCC_43143_uid162103/NC_017576.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_ATCC_43143_uid162103/NC_017576.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_ATCC_43143_uid162103/NC_017576.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_ATCC_BAA_2069_uid63617/NC_015215.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_ATCC_BAA_2069_uid63617/NC_015215.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_ATCC_BAA_2069_uid63617/NC_015215.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_ATCC_BAA_2069_uid63617/NC_015219.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_ATCC_BAA_2069_uid63617/NC_015219.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_ATCC_BAA_2069_uid63617/NC_015219.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_UCN34_uid46061/NC_013798.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_UCN34_uid46061/NC_013798.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gallolyticus_UCN34_uid46061/NC_013798.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gordonii_Challis_substr__CH1_uid57667/NC_009785.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gordonii_Challis_substr__CH1_uid57667/NC_009785.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_gordonii_Challis_substr__CH1_uid57667/NC_009785.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_infantarius_CJ18_uid87033/NC_016826.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_infantarius_CJ18_uid87033/NC_016826.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_infantarius_CJ18_uid87033/NC_016826.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_infantarius_CJ18_uid87033/NC_016837.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_infantarius_CJ18_uid87033/NC_016837.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_infantarius_CJ18_uid87033/NC_016837.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_iniae_SF1_uid206041/NC_021314.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_iniae_SF1_uid206041/NC_021314.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_iniae_SF1_uid206041/NC_021314.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_intermedius_B196_uid218000/NC_022246.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_intermedius_B196_uid218000/NC_022246.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_intermedius_B196_uid218000/NC_022246.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_intermedius_C270_uid217999/NC_022237.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_intermedius_C270_uid217999/NC_022237.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_intermedius_C270_uid217999/NC_022237.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_intermedius_JTH08_uid168614/NC_018073.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_intermedius_JTH08_uid168614/NC_018073.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_intermedius_JTH08_uid168614/NC_018073.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_lutetiensis_033_uid213397/NC_021900.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_lutetiensis_033_uid213397/NC_021900.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_lutetiensis_033_uid213397/NC_021900.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_macedonicus_ACA_DC_198_uid81631/NC_016749.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_macedonicus_ACA_DC_198_uid81631/NC_016749.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_macedonicus_ACA_DC_198_uid81631/NC_016749.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_macedonicus_ACA_DC_198_uid81631/NC_016750.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_macedonicus_ACA_DC_198_uid81631/NC_016750.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_macedonicus_ACA_DC_198_uid81631/NC_016750.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mitis_B6_uid46097/NC_013853.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mitis_B6_uid46097/NC_013853.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mitis_B6_uid46097/NC_013853.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_GS_5_uid169223/NC_018089.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_GS_5_uid169223/NC_018089.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_GS_5_uid169223/NC_018089.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_LJ23_uid162197/NC_017768.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_LJ23_uid162197/NC_017768.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_LJ23_uid162197/NC_017768.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_NN2025_uid46353/NC_013928.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_NN2025_uid46353/NC_013928.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_NN2025_uid46353/NC_013928.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_UA159_uid57947/NC_004350.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_UA159_uid57947/NC_004350.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_mutans_UA159_uid57947/NC_004350.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_oligofermentans_AS_1_3089_uid201429/NC_021175.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_oligofermentans_AS_1_3089_uid201429/NC_021175.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_oligofermentans_AS_1_3089_uid201429/NC_021175.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_oralis_Uo5_uid65449/NC_015291.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_oralis_Uo5_uid65449/NC_015291.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_oralis_Uo5_uid65449/NC_015291.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_parasanguinis_ATCC_15912_uid49313/NC_015678.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_parasanguinis_ATCC_15912_uid49313/NC_015678.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_parasanguinis_ATCC_15912_uid49313/NC_015678.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_parasanguinis_FW213_uid163997/NC_017905.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_parasanguinis_FW213_uid163997/NC_017905.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_parasanguinis_FW213_uid163997/NC_017905.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_parauberis_KCTC_11537_uid67355/NC_015558.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_parauberis_KCTC_11537_uid67355/NC_015558.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_parauberis_KCTC_11537_uid67355/NC_015558.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pasteurianus_ATCC_43144_uid68019/NC_015600.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pasteurianus_ATCC_43144_uid68019/NC_015600.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pasteurianus_ATCC_43144_uid68019/NC_015600.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_670_6B_uid52533/NC_014498.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_670_6B_uid52533/NC_014498.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_670_6B_uid52533/NC_014498.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_70585_uid59125/NC_012468.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_70585_uid59125/NC_012468.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_70585_uid59125/NC_012468.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_A026_uid226114/NC_022655.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_A026_uid226114/NC_022655.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_A026_uid226114/NC_022655.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_AP200_uid52453/NC_014494.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_AP200_uid52453/NC_014494.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_AP200_uid52453/NC_014494.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_ATCC_700669_uid59287/NC_011900.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_ATCC_700669_uid59287/NC_011900.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_ATCC_700669_uid59287/NC_011900.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_CGSP14_uid59181/NC_010582.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_CGSP14_uid59181/NC_010582.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_CGSP14_uid59181/NC_010582.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_D39_uid58581/NC_008533.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_D39_uid58581/NC_008533.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_D39_uid58581/NC_008533.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_G54_uid59167/NC_011072.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_G54_uid59167/NC_011072.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_G54_uid59167/NC_011072.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_Hungary19A_6_uid59117/NC_010380.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_Hungary19A_6_uid59117/NC_010380.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_Hungary19A_6_uid59117/NC_010380.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_INV104_uid162039/NC_017591.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_INV104_uid162039/NC_017591.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_INV104_uid162039/NC_017591.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_INV200_uid162035/NC_017593.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_INV200_uid162035/NC_017593.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_INV200_uid162035/NC_017593.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_JJA_uid59121/NC_012466.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_JJA_uid59121/NC_012466.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_JJA_uid59121/NC_012466.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_OXC141_uid162037/NC_017592.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_OXC141_uid162037/NC_017592.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_OXC141_uid162037/NC_017592.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_P1031_uid59123/NC_012467.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_P1031_uid59123/NC_012467.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_P1031_uid59123/NC_012467.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_R6_uid57859/NC_003098.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_R6_uid57859/NC_003098.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_R6_uid57859/NC_003098.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN034156_uid197185/NC_021006.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN034156_uid197185/NC_021006.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN034156_uid197185/NC_021006.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN034183_uid197186/NC_021028.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN034183_uid197186/NC_021028.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN034183_uid197186/NC_021028.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN994038_uid197187/NC_021026.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN994038_uid197187/NC_021026.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN994038_uid197187/NC_021026.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN994039_uid197188/NC_021005.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN994039_uid197188/NC_021005.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPN994039_uid197188/NC_021005.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPNA45_uid174986/NC_018594.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPNA45_uid174986/NC_018594.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_SPNA45_uid174986/NC_018594.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_ST556_uid162191/NC_017769.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_ST556_uid162191/NC_017769.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_ST556_uid162191/NC_017769.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_TCH8431_19A_uid49735/NC_014251.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_TCH8431_19A_uid49735/NC_014251.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_TCH8431_19A_uid49735/NC_014251.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_TIGR4_uid57857/NC_003028.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_TIGR4_uid57857/NC_003028.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_TIGR4_uid57857/NC_003028.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_Taiwan19F_14_uid59119/NC_012469.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_Taiwan19F_14_uid59119/NC_012469.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_Taiwan19F_14_uid59119/NC_012469.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_gamPNI0373_uid175861/NC_018630.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_gamPNI0373_uid175861/NC_018630.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pneumoniae_gamPNI0373_uid175861/NC_018630.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pseudopneumoniae_IS7493_uid71153/NC_015875.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pseudopneumoniae_IS7493_uid71153/NC_015875.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pseudopneumoniae_IS7493_uid71153/NC_015875.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pseudopneumoniae_IS7493_uid71153/NC_015876.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pseudopneumoniae_IS7493_uid71153/NC_015876.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pseudopneumoniae_IS7493_uid71153/NC_015876.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_A20_uid178106/NC_018936.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_A20_uid178106/NC_018936.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_A20_uid178106/NC_018936.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_Alab49_uid162171/NC_017596.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_Alab49_uid162171/NC_017596.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_Alab49_uid162171/NC_017596.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_HSC5_uid212978/NC_021807.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_HSC5_uid212978/NC_021807.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_HSC5_uid212978/NC_021807.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_M1_476_uid193766/NC_020540.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_M1_476_uid193766/NC_020540.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_M1_476_uid193766/NC_020540.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_M1_GAS_uid57845/NC_002737.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_M1_GAS_uid57845/NC_002737.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_M1_GAS_uid57845/NC_002737.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS10270_uid58571/NC_008022.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS10270_uid58571/NC_008022.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS10270_uid58571/NC_008022.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS10394_uid58105/NC_006086.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS10394_uid58105/NC_006086.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS10394_uid58105/NC_006086.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS10750_uid58575/NC_008024.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS10750_uid58575/NC_008024.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS10750_uid58575/NC_008024.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS15252_uid158037/NC_017040.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS15252_uid158037/NC_017040.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS15252_uid158037/NC_017040.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS1882_uid158061/NC_017053.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS1882_uid158061/NC_017053.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS1882_uid158061/NC_017053.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS2096_uid58573/NC_008023.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS2096_uid58573/NC_008023.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS2096_uid58573/NC_008023.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS315_uid57911/NC_004070.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS315_uid57911/NC_004070.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS315_uid57911/NC_004070.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS5005_uid58337/NC_007297.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS5005_uid58337/NC_007297.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS5005_uid58337/NC_007297.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS6180_uid58335/NC_007296.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS6180_uid58335/NC_007296.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS6180_uid58335/NC_007296.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS8232_uid57871/NC_003485.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS8232_uid57871/NC_003485.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS8232_uid57871/NC_003485.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS9429_uid58569/NC_008021.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS9429_uid58569/NC_008021.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_MGAS9429_uid58569/NC_008021.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_Manfredo_uid57847/NC_009332.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_Manfredo_uid57847/NC_009332.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_Manfredo_uid57847/NC_009332.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_NZ131_uid59035/NC_011375.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_NZ131_uid59035/NC_011375.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_NZ131_uid59035/NC_011375.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_SSI_1_uid57895/NC_004606.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_SSI_1_uid57895/NC_004606.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_pyogenes_SSI_1_uid57895/NC_004606.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_57_I_uid162151/NC_017594.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_57_I_uid162151/NC_017594.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_57_I_uid162151/NC_017594.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_57_I_uid162151/NC_018285.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_57_I_uid162151/NC_018285.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_57_I_uid162151/NC_018285.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_CCHSS3_uid70481/NC_015760.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_CCHSS3_uid70481/NC_015760.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_CCHSS3_uid70481/NC_015760.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_JIM8777_uid162145/NC_017595.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_JIM8777_uid162145/NC_017595.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_salivarius_JIM8777_uid162145/NC_017595.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_sanguinis_SK36_uid58381/NC_009009.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_sanguinis_SK36_uid58381/NC_009009.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_sanguinis_SK36_uid58381/NC_009009.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_05ZYH33_uid58663/NC_009442.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_05ZYH33_uid58663/NC_009442.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_05ZYH33_uid58663/NC_009442.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_98HAH33_uid58665/NC_009443.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_98HAH33_uid58665/NC_009443.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_98HAH33_uid58665/NC_009443.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_A7_uid162111/NC_017622.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_A7_uid162111/NC_017622.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_A7_uid162111/NC_017622.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_BM407_uid59321/NC_012923.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_BM407_uid59321/NC_012923.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_BM407_uid59321/NC_012923.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_BM407_uid59321/NC_012926.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_BM407_uid59321/NC_012926.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_BM407_uid59321/NC_012926.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_D12_uid162127/NC_017621.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_D12_uid162127/NC_017621.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_D12_uid162127/NC_017621.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_D9_uid162125/NC_017620.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_D9_uid162125/NC_017620.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_D9_uid162125/NC_017620.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_GZ1_uid161937/NC_017617.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_GZ1_uid161937/NC_017617.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_GZ1_uid161937/NC_017617.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_JS14_uid162095/NC_017618.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_JS14_uid162095/NC_017618.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_JS14_uid162095/NC_017618.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_P1_7_uid32235/NC_012925.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_P1_7_uid32235/NC_012925.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_P1_7_uid32235/NC_012925.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_S735_uid174333/NC_018526.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_S735_uid174333/NC_018526.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_S735_uid174333/NC_018526.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_SC070731_uid193769/NC_020526.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_SC070731_uid193769/NC_020526.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_SC070731_uid193769/NC_020526.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_SC84_uid59323/NC_012924.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_SC84_uid59323/NC_012924.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_SC84_uid59323/NC_012924.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_SS12_uid162123/NC_017619.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_SS12_uid162123/NC_017619.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_SS12_uid162123/NC_017619.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_ST1_uid167482/NC_017950.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_ST1_uid167482/NC_017950.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_ST1_uid167482/NC_017950.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_ST3_uid66327/NC_015433.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_ST3_uid66327/NC_015433.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_ST3_uid66327/NC_015433.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_T15_uid226112/NC_022665.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_T15_uid226112/NC_022665.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_T15_uid226112/NC_022665.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_TL13_uid203123/NC_021213.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_TL13_uid203123/NC_021213.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_TL13_uid203123/NC_021213.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_YB51_uid222230/NC_022516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_YB51_uid222230/NC_022516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_suis_YB51_uid222230/NC_022516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_CNRZ1066_uid58221/NC_006449.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_CNRZ1066_uid58221/NC_006449.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_CNRZ1066_uid58221/NC_006449.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_JIM_8232_uid162157/NC_017581.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_JIM_8232_uid162157/NC_017581.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_JIM_8232_uid162157/NC_017581.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMD_9_uid58327/NC_008500.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMD_9_uid58327/NC_008500.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMD_9_uid58327/NC_008500.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMD_9_uid58327/NC_008501.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMD_9_uid58327/NC_008501.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMD_9_uid58327/NC_008501.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMD_9_uid58327/NC_008532.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMD_9_uid58327/NC_008532.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMD_9_uid58327/NC_008532.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMG_18311_uid58219/NC_006448.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMG_18311_uid58219/NC_006448.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_LMG_18311_uid58219/NC_006448.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_MN_ZLW_002_uid166827/NC_017927.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_MN_ZLW_002_uid166827/NC_017927.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_MN_ZLW_002_uid166827/NC_017927.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_ND03_uid162015/NC_017563.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_ND03_uid162015/NC_017563.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_thermophilus_ND03_uid162015/NC_017563.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_uberis_0140J_uid57959/NC_012004.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_uberis_0140J_uid57959/NC_012004.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptococcus_uberis_0140J_uid57959/NC_012004.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_PAMC26508_uid197217/NC_021055.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_PAMC26508_uid197217/NC_021055.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_PAMC26508_uid197217/NC_021055.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_PAMC26508_uid197217/NC_021056.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_PAMC26508_uid197217/NC_021056.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_PAMC26508_uid197217/NC_021056.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_SirexAA_E_uid72627/NC_015953.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_SirexAA_E_uid72627/NC_015953.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_SirexAA_E_uid72627/NC_015953.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_albus_J1074_uid196849/NC_020990.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_albus_J1074_uid196849/NC_020990.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_albus_J1074_uid196849/NC_020990.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_avermitilis_MA_4680_uid57739/NC_003155.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_avermitilis_MA_4680_uid57739/NC_003155.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_avermitilis_MA_4680_uid57739/NC_003155.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_avermitilis_MA_4680_uid57739/NC_004719.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_avermitilis_MA_4680_uid57739/NC_004719.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_avermitilis_MA_4680_uid57739/NC_004719.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_bingchenggensis_BCW_1_uid82931/NC_016582.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_bingchenggensis_BCW_1_uid82931/NC_016582.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_bingchenggensis_BCW_1_uid82931/NC_016582.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid162187/NC_017585.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid162187/NC_017585.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid162187/NC_017585.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid162187/NC_017586.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid162187/NC_017586.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid162187/NC_017586.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid77117/NC_016111.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid77117/NC_016111.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid77117/NC_016111.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid77117/NC_016113.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid77117/NC_016113.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_cattleya_NRRL_8057___DSM_46488_uid77117/NC_016113.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_coelicolor_A3_2__uid57801/NC_003888.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_coelicolor_A3_2__uid57801/NC_003888.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_coelicolor_A3_2__uid57801/NC_003888.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_coelicolor_A3_2__uid57801/NC_003903.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_coelicolor_A3_2__uid57801/NC_003903.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_coelicolor_A3_2__uid57801/NC_003903.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_coelicolor_A3_2__uid57801/NC_003904.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_coelicolor_A3_2__uid57801/NC_003904.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_coelicolor_A3_2__uid57801/NC_003904.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_collinus_Tu_365_uid214429/NC_021985.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_collinus_Tu_365_uid214429/NC_021985.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_collinus_Tu_365_uid214429/NC_021985.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_collinus_Tu_365_uid214429/NC_021986.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_collinus_Tu_365_uid214429/NC_021986.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_collinus_Tu_365_uid214429/NC_021986.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_collinus_Tu_365_uid214429/NC_022001.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_collinus_Tu_365_uid214429/NC_022001.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_collinus_Tu_365_uid214429/NC_022001.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_davawensis_JCM_4913_uid193657/NC_020504.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_davawensis_JCM_4913_uid193657/NC_020504.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_davawensis_JCM_4913_uid193657/NC_020504.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_davawensis_JCM_4913_uid193657/NC_020545.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_davawensis_JCM_4913_uid193657/NC_020545.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_davawensis_JCM_4913_uid193657/NC_020545.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_flavogriseus_ATCC_33331_uid40839/NC_016110.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_flavogriseus_ATCC_33331_uid40839/NC_016110.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_flavogriseus_ATCC_33331_uid40839/NC_016110.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_flavogriseus_ATCC_33331_uid40839/NC_016114.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_flavogriseus_ATCC_33331_uid40839/NC_016114.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_flavogriseus_ATCC_33331_uid40839/NC_016114.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_flavogriseus_ATCC_33331_uid40839/NC_016115.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_flavogriseus_ATCC_33331_uid40839/NC_016115.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_flavogriseus_ATCC_33331_uid40839/NC_016115.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_fulvissimus_DSM_40593_uid201038/NC_021177.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_fulvissimus_DSM_40593_uid201038/NC_021177.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_fulvissimus_DSM_40593_uid201038/NC_021177.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_griseus_NBRC_13350_uid58983/NC_010572.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_griseus_NBRC_13350_uid58983/NC_010572.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_griseus_NBRC_13350_uid58983/NC_010572.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_5008_uid89409/NC_016972.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_5008_uid89409/NC_016972.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_5008_uid89409/NC_016972.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_5008_uid89409/NC_017765.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_5008_uid89409/NC_017765.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_5008_uid89409/NC_017765.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_5008_uid89409/NC_017766.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_5008_uid89409/NC_017766.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_5008_uid89409/NC_017766.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_TL01_uid189753/NC_020293.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_TL01_uid189753/NC_020293.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_TL01_uid189753/NC_020293.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_TL01_uid189753/NC_020894.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_TL01_uid189753/NC_020894.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_TL01_uid189753/NC_020894.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_TL01_uid189753/NC_020895.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_TL01_uid189753/NC_020895.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_hygroscopicus_jinggangensis_TL01_uid189753/NC_020895.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_rapamycinicus_NRRL_5491_uid227224/NC_022785.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_rapamycinicus_NRRL_5491_uid227224/NC_022785.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_rapamycinicus_NRRL_5491_uid227224/NC_022785.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_scabiei_87_22_uid46531/NC_013929.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_scabiei_87_22_uid46531/NC_013929.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_scabiei_87_22_uid46531/NC_013929.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_venezuelae_ATCC_10712_uid177080/NC_018750.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_venezuelae_ATCC_10712_uid177080/NC_018750.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_venezuelae_ATCC_10712_uid177080/NC_018750.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_violaceusniger_Tu_4113_uid52609/NC_015951.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_violaceusniger_Tu_4113_uid52609/NC_015951.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_violaceusniger_Tu_4113_uid52609/NC_015951.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_violaceusniger_Tu_4113_uid52609/NC_015952.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_violaceusniger_Tu_4113_uid52609/NC_015952.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_violaceusniger_Tu_4113_uid52609/NC_015952.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_violaceusniger_Tu_4113_uid52609/NC_015957.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_violaceusniger_Tu_4113_uid52609/NC_015957.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptomyces_violaceusniger_Tu_4113_uid52609/NC_015957.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptosporangium_roseum_DSM_43021_uid42521/NC_013595.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptosporangium_roseum_DSM_43021_uid42521/NC_013595.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptosporangium_roseum_DSM_43021_uid42521/NC_013595.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptosporangium_roseum_DSM_43021_uid42521/NC_013596.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptosporangium_roseum_DSM_43021_uid42521/NC_013596.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Streptosporangium_roseum_DSM_43021_uid42521/NC_013596.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfobacillus_acidophilus_DSM_10332_uid88061/NC_016884.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfobacillus_acidophilus_DSM_10332_uid88061/NC_016884.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfobacillus_acidophilus_DSM_10332_uid88061/NC_016884.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfobacillus_acidophilus_DSM_10332_uid88061/NC_016888.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfobacillus_acidophilus_DSM_10332_uid88061/NC_016888.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfobacillus_acidophilus_DSM_10332_uid88061/NC_016888.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfobacillus_acidophilus_TPY_uid68841/NC_015757.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfobacillus_acidophilus_TPY_uid68841/NC_015757.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfobacillus_acidophilus_TPY_uid68841/NC_015757.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricella_denitrificans_skB26_uid170240/NC_022357.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricella_denitrificans_skB26_uid170240/NC_022357.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricella_denitrificans_skB26_uid170240/NC_022357.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricella_denitrificans_skB26_uid170240/NC_022358.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricella_denitrificans_skB26_uid170240/NC_022358.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricella_denitrificans_skB26_uid170240/NC_022358.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014754.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014754.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014754.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014755.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014755.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014755.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014756.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014756.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014756.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014762.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014762.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014762.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014763.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014763.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfuricurvum_kujiense_DSM_16994_uid60789/NC_014763.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurimonas_autotrophica_DSM_16294_uid53043/NC_014506.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurimonas_autotrophica_DSM_16294_uid53043/NC_014506.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurimonas_autotrophica_DSM_16294_uid53043/NC_014506.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurimonas_denitrificans_DSM_1251_uid58185/NC_007575.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurimonas_denitrificans_DSM_1251_uid58185/NC_007575.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurimonas_denitrificans_DSM_1251_uid58185/NC_007575.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurospirillum_barnesii_SES_3_uid168117/NC_018002.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurospirillum_barnesii_SES_3_uid168117/NC_018002.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurospirillum_barnesii_SES_3_uid168117/NC_018002.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurospirillum_deleyianum_DSM_6946_uid41861/NC_013512.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurospirillum_deleyianum_DSM_6946_uid41861/NC_013512.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurospirillum_deleyianum_DSM_6946_uid41861/NC_013512.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurovum_NBC37_1_uid58863/NC_009663.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurovum_NBC37_1_uid58863/NC_009663.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Sulfurovum_NBC37_1_uid58863/NC_009663.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Symbiobacterium_thermophilum_IAM_14863_uid58165/NC_006177.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Symbiobacterium_thermophilum_IAM_14863_uid58165/NC_006177.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Symbiobacterium_thermophilum_IAM_14863_uid58165/NC_006177.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_CC9311_uid58123/NC_008319.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_CC9311_uid58123/NC_008319.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_CC9311_uid58123/NC_008319.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_CC9605_uid58319/NC_007516.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_CC9605_uid58319/NC_007516.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_CC9605_uid58319/NC_007516.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_CC9902_uid58323/NC_007513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_CC9902_uid58323/NC_007513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_CC9902_uid58323/NC_007513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_JA_2_3B_a_2_13__uid58537/NC_007776.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_JA_2_3B_a_2_13__uid58537/NC_007776.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_JA_2_3B_a_2_13__uid58537/NC_007776.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_JA_3_3Ab_uid58535/NC_007775.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_JA_3_3Ab_uid58535/NC_007775.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_JA_3_3Ab_uid58535/NC_007775.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_6312_uid182934/NC_019680.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_6312_uid182934/NC_019680.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_6312_uid182934/NC_019680.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_6312_uid182934/NC_019681.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_6312_uid182934/NC_019681.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_6312_uid182934/NC_019681.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010474.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010474.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010474.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010475.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010475.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010475.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010476.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010476.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010476.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010477.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010477.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010477.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010478.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010478.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010478.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010479.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010479.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010479.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010480.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010480.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7002_uid59137/NC_010480.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7502_uid183008/NC_019691.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7502_uid183008/NC_019691.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7502_uid183008/NC_019691.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7502_uid183008/NC_019692.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7502_uid183008/NC_019692.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7502_uid183008/NC_019692.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7502_uid183008/NC_019702.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7502_uid183008/NC_019702.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_PCC_7502_uid183008/NC_019702.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_RCC307_uid61609/NC_009482.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_RCC307_uid61609/NC_009482.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_RCC307_uid61609/NC_009482.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_WH_7803_uid61607/NC_009481.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_WH_7803_uid61607/NC_009481.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_WH_7803_uid61607/NC_009481.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_WH_8102_uid61581/NC_005070.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_WH_8102_uid61581/NC_005070.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_WH_8102_uid61581/NC_005070.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_elongatus_PCC_6301_uid58235/NC_006576.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_elongatus_PCC_6301_uid58235/NC_006576.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_elongatus_PCC_6301_uid58235/NC_006576.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_elongatus_PCC_7942_uid58045/NC_007595.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_elongatus_PCC_7942_uid58045/NC_007595.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_elongatus_PCC_7942_uid58045/NC_007595.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_elongatus_PCC_7942_uid58045/NC_007604.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_elongatus_PCC_7942_uid58045/NC_007604.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechococcus_elongatus_PCC_7942_uid58045/NC_007604.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_substr__GT_I_uid157913/NC_017038.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_substr__GT_I_uid157913/NC_017038.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_substr__GT_I_uid157913/NC_017038.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_substr__GT_I_uid158059/NC_017052.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_substr__GT_I_uid158059/NC_017052.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_substr__GT_I_uid158059/NC_017052.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_substr__PCC_N_uid159835/NC_017039.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_substr__PCC_N_uid159835/NC_017039.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_substr__PCC_N_uid159835/NC_017039.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid159873/NC_017277.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid159873/NC_017277.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid159873/NC_017277.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020286.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020286.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020286.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020287.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020287.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020287.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020288.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020288.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020288.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020289.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020289.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020289.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020290.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020290.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020290.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020296.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020296.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020296.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020297.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020297.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020297.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020298.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020298.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid189748/NC_020298.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_000911.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_000911.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_000911.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005229.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005229.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005229.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005230.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005230.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005230.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005231.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005231.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005231.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005232.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005232.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synechocystis_PCC_6803_uid57659/NC_005232.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synergistetes_bacterium_SGP1_uid197182/NC_021038.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synergistetes_bacterium_SGP1_uid197182/NC_021038.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Synergistetes_bacterium_SGP1_uid197182/NC_021038.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophobacter_fumaroxidans_MPOB_uid58177/NC_008554.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophobacter_fumaroxidans_MPOB_uid58177/NC_008554.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophobacter_fumaroxidans_MPOB_uid58177/NC_008554.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophobotulus_glycolicus_DSM_8271_uid63343/NC_015172.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophobotulus_glycolicus_DSM_8271_uid63343/NC_015172.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophobotulus_glycolicus_DSM_8271_uid63343/NC_015172.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophomonas_wolfei_Goettingen_uid58179/NC_008346.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophomonas_wolfei_Goettingen_uid58179/NC_008346.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophomonas_wolfei_Goettingen_uid58179/NC_008346.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophothermus_lipocalidus_DSM_12680_uid49527/NC_014220.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophothermus_lipocalidus_DSM_12680_uid49527/NC_014220.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophothermus_lipocalidus_DSM_12680_uid49527/NC_014220.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophus_aciditrophicus_SB_uid58539/NC_007759.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophus_aciditrophicus_SB_uid58539/NC_007759.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Syntrophus_aciditrophicus_SB_uid58539/NC_007759.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tannerella_forsythia_ATCC_43037_uid83157/NC_016610.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tannerella_forsythia_ATCC_43037_uid83157/NC_016610.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tannerella_forsythia_ATCC_43037_uid83157/NC_016610.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_asinigenitalis_14_45_uid197194/NC_021033.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_asinigenitalis_14_45_uid197194/NC_021033.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_asinigenitalis_14_45_uid197194/NC_021033.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_asinigenitalis_MCE3_uid73771/NC_016043.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_asinigenitalis_MCE3_uid73771/NC_016043.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_asinigenitalis_MCE3_uid73771/NC_016043.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_equigenitalis_14_56_uid197193/NC_021036.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_equigenitalis_14_56_uid197193/NC_021036.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_equigenitalis_14_56_uid197193/NC_021036.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_equigenitalis_ATCC_35865_uid170255/NC_018108.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_equigenitalis_ATCC_35865_uid170255/NC_018108.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_equigenitalis_ATCC_35865_uid170255/NC_018108.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_equigenitalis_MCE9_uid62103/NC_014914.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_equigenitalis_MCE9_uid62103/NC_014914.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Taylorella_equigenitalis_MCE9_uid62103/NC_014914.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tepidanaerobacter_Re1_uid66873/NC_015519.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tepidanaerobacter_Re1_uid66873/NC_015519.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tepidanaerobacter_Re1_uid66873/NC_015519.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tepidanaerobacter_acetatoxydans_Re1_uid184827/NC_019954.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tepidanaerobacter_acetatoxydans_Re1_uid184827/NC_019954.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tepidanaerobacter_acetatoxydans_Re1_uid184827/NC_019954.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Teredinibacter_turnerae_T7901_uid59267/NC_012997.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Teredinibacter_turnerae_T7901_uid59267/NC_012997.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Teredinibacter_turnerae_T7901_uid59267/NC_012997.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Terriglobus_roseus_DSM_18391_uid168183/NC_018014.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Terriglobus_roseus_DSM_18391_uid168183/NC_018014.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Terriglobus_roseus_DSM_18391_uid168183/NC_018014.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Terriglobus_saanensis_SP1PR4_uid53251/NC_014963.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Terriglobus_saanensis_SP1PR4_uid53251/NC_014963.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Terriglobus_saanensis_SP1PR4_uid53251/NC_014963.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tetragenococcus_halophilus_uid74441/NC_016052.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tetragenococcus_halophilus_uid74441/NC_016052.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tetragenococcus_halophilus_uid74441/NC_016052.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thalassobaculum_L2_uid182483/NC_019566.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thalassobaculum_L2_uid182483/NC_019566.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thalassobaculum_L2_uid182483/NC_019566.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thalassolituus_oleivorans_MIL_1_uid195604/NC_020888.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thalassolituus_oleivorans_MIL_1_uid195604/NC_020888.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thalassolituus_oleivorans_MIL_1_uid195604/NC_020888.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thauera_MZ1T_uid58987/NC_011662.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thauera_MZ1T_uid58987/NC_011662.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thauera_MZ1T_uid58987/NC_011662.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thauera_MZ1T_uid58987/NC_011667.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thauera_MZ1T_uid58987/NC_011667.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thauera_MZ1T_uid58987/NC_011667.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermacetogenium_phaeum_DSM_12270_uid177811/NC_018870.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermacetogenium_phaeum_DSM_12270_uid177811/NC_018870.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermacetogenium_phaeum_DSM_12270_uid177811/NC_018870.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermaerobacter_marianensis_DSM_12885_uid61727/NC_014831.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermaerobacter_marianensis_DSM_12885_uid61727/NC_014831.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermaerobacter_marianensis_DSM_12885_uid61727/NC_014831.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermanaerovibrio_acidaminovorans_DSM_6589_uid41925/NC_013522.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermanaerovibrio_acidaminovorans_DSM_6589_uid41925/NC_013522.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermanaerovibrio_acidaminovorans_DSM_6589_uid41925/NC_013522.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermincola_potens_JR_uid48823/NC_014152.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermincola_potens_JR_uid48823/NC_014152.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermincola_potens_JR_uid48823/NC_014152.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_X513_uid53065/NC_014538.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_X513_uid53065/NC_014538.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_X513_uid53065/NC_014538.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_X514_uid58589/NC_010320.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_X514_uid58589/NC_010320.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_X514_uid58589/NC_010320.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_brockii_finnii_Ako_1_uid55639/NC_014964.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_brockii_finnii_Ako_1_uid55639/NC_014964.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_brockii_finnii_Ako_1_uid55639/NC_014964.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_italicus_Ab9_uid46241/NC_013921.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_italicus_Ab9_uid46241/NC_013921.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_italicus_Ab9_uid46241/NC_013921.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_mathranii_A3_uid49481/NC_014209.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_mathranii_A3_uid49481/NC_014209.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_mathranii_A3_uid49481/NC_014209.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_pseudethanolicus_ATCC_33223_uid58339/NC_010321.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_pseudethanolicus_ATCC_33223_uid58339/NC_010321.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_pseudethanolicus_ATCC_33223_uid58339/NC_010321.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_tengcongensis_MB4_uid57813/NC_003869.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_tengcongensis_MB4_uid57813/NC_003869.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_tengcongensis_MB4_uid57813/NC_003869.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_wiegelii_Rt8_B1_uid52581/NC_015958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_wiegelii_Rt8_B1_uid52581/NC_015958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacter_wiegelii_Rt8_B1_uid52581/NC_015958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_thermosaccharolyticum_DSM_571_uid51639/NC_014410.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_thermosaccharolyticum_DSM_571_uid51639/NC_014410.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_thermosaccharolyticum_DSM_571_uid51639/NC_014410.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_thermosaccharolyticum_M0795_uid184821/NC_019956.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_thermosaccharolyticum_M0795_uid184821/NC_019956.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_thermosaccharolyticum_M0795_uid184821/NC_019956.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_thermosaccharolyticum_M0795_uid184821/NC_019970.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_thermosaccharolyticum_M0795_uid184821/NC_019970.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_thermosaccharolyticum_M0795_uid184821/NC_019970.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_xylanolyticum_LX_11_uid63163/NC_015555.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_xylanolyticum_LX_11_uid63163/NC_015555.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermoanaerobacterium_xylanolyticum_LX_11_uid63163/NC_015555.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobacillus_composti_KWC4_uid74021/NC_019897.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobacillus_composti_KWC4_uid74021/NC_019897.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobacillus_composti_KWC4_uid74021/NC_019897.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobacillus_composti_KWC4_uid74021/NC_019898.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobacillus_composti_KWC4_uid74021/NC_019898.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobacillus_composti_KWC4_uid74021/NC_019898.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobaculum_terrenum_ATCC_BAA_798_uid42011/NC_013525.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobaculum_terrenum_ATCC_BAA_798_uid42011/NC_013525.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobaculum_terrenum_ATCC_BAA_798_uid42011/NC_013525.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobaculum_terrenum_ATCC_BAA_798_uid42011/NC_013526.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobaculum_terrenum_ATCC_BAA_798_uid42011/NC_013526.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobaculum_terrenum_ATCC_BAA_798_uid42011/NC_013526.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobifida_fusca_YX_uid57703/NC_007333.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobifida_fusca_YX_uid57703/NC_007333.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobifida_fusca_YX_uid57703/NC_007333.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobispora_bispora_DSM_43833_uid48999/NC_014165.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobispora_bispora_DSM_43833_uid48999/NC_014165.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermobispora_bispora_DSM_43833_uid48999/NC_014165.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermococcus_4557_uid70841/NC_015865.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermococcus_4557_uid70841/NC_015865.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermococcus_4557_uid70841/NC_015865.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermococcus_AM4_uid54735/NC_016051.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermococcus_AM4_uid54735/NC_016051.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermococcus_AM4_uid54735/NC_016051.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermococcus_CL1_uid168259/NC_018015.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermococcus_CL1_uid168259/NC_018015.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermococcus_CL1_uid168259/NC_018015.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfatator_indicus_DSM_15286_uid68285/NC_015681.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfatator_indicus_DSM_15286_uid68285/NC_015681.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfatator_indicus_DSM_15286_uid68285/NC_015681.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfobacterium_OPB45_uid68283/NC_015682.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfobacterium_OPB45_uid68283/NC_015682.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfobacterium_OPB45_uid68283/NC_015682.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfobium_narugense_DSM_14796_uid66601/NC_015499.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfobium_narugense_DSM_14796_uid66601/NC_015499.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfobium_narugense_DSM_14796_uid66601/NC_015499.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfovibrio_yellowstonii_DSM_11347_uid59257/NC_011296.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfovibrio_yellowstonii_DSM_11347_uid59257/NC_011296.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermodesulfovibrio_yellowstonii_DSM_11347_uid59257/NC_011296.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermofilum_1910b_uid215374/NC_022093.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermofilum_1910b_uid215374/NC_022093.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermofilum_1910b_uid215374/NC_022093.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermogladius_1633_uid167488/NC_017954.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermogladius_1633_uid167488/NC_017954.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermogladius_1633_uid167488/NC_017954.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermomicrobium_roseum_DSM_5159_uid59341/NC_011959.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermomicrobium_roseum_DSM_5159_uid59341/NC_011959.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermomicrobium_roseum_DSM_5159_uid59341/NC_011959.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermomicrobium_roseum_DSM_5159_uid59341/NC_011961.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermomicrobium_roseum_DSM_5159_uid59341/NC_011961.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermomicrobium_roseum_DSM_5159_uid59341/NC_011961.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermomonospora_curvata_DSM_43183_uid41885/NC_013510.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermomonospora_curvata_DSM_43183_uid41885/NC_013510.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermomonospora_curvata_DSM_43183_uid41885/NC_013510.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosediminibacter_oceani_DSM_16646_uid51421/NC_014377.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosediminibacter_oceani_DSM_16646_uid51421/NC_014377.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosediminibacter_oceani_DSM_16646_uid51421/NC_014377.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosipho_africanus_TCF52B_uid59095/NC_011653.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosipho_africanus_TCF52B_uid59095/NC_011653.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosipho_africanus_TCF52B_uid59095/NC_011653.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosipho_melanesiensis_BI429_uid58683/NC_009616.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosipho_melanesiensis_BI429_uid58683/NC_009616.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosipho_melanesiensis_BI429_uid58683/NC_009616.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosynechococcus_NK55_uid231517/NC_023033.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosynechococcus_NK55_uid231517/NC_023033.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosynechococcus_NK55_uid231517/NC_023033.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosynechococcus_elongatus_BP_1_uid57907/NC_004113.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosynechococcus_elongatus_BP_1_uid57907/NC_004113.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermosynechococcus_elongatus_BP_1_uid57907/NC_004113.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_RQ2_uid58935/NC_010483.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_RQ2_uid58935/NC_010483.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_RQ2_uid58935/NC_010483.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_lettingae_TMO_uid58419/NC_009828.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_lettingae_TMO_uid58419/NC_009828.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_lettingae_TMO_uid58419/NC_009828.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_maritima_MSB8_uid179902/NC_023151.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_maritima_MSB8_uid179902/NC_023151.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_maritima_MSB8_uid179902/NC_023151.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_maritima_MSB8_uid202924/NC_021214.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_maritima_MSB8_uid202924/NC_021214.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_maritima_MSB8_uid202924/NC_021214.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_maritima_MSB8_uid57723/NC_000853.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_maritima_MSB8_uid57723/NC_000853.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_maritima_MSB8_uid57723/NC_000853.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_naphthophila_RKU_10_uid42777/NC_013642.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_naphthophila_RKU_10_uid42777/NC_013642.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_naphthophila_RKU_10_uid42777/NC_013642.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_neapolitana_DSM_4359_uid59065/NC_011978.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_neapolitana_DSM_4359_uid59065/NC_011978.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_neapolitana_DSM_4359_uid59065/NC_011978.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_petrophila_RKU_1_uid58655/NC_009486.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_petrophila_RKU_1_uid58655/NC_009486.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_petrophila_RKU_1_uid58655/NC_009486.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_thermarum_DSM_5069_uid68449/NC_015707.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_thermarum_DSM_5069_uid68449/NC_015707.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermotoga_thermarum_DSM_5069_uid68449/NC_015707.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermovirga_lienii_DSM_17291_uid77129/NC_016148.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermovirga_lienii_DSM_17291_uid77129/NC_016148.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermovirga_lienii_DSM_17291_uid77129/NC_016148.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermovirga_lienii_DSM_17291_uid77129/NC_016149.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermovirga_lienii_DSM_17291_uid77129/NC_016149.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermovirga_lienii_DSM_17291_uid77129/NC_016149.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_CCB_US3_UF1_uid81197/NC_016634.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_CCB_US3_UF1_uid81197/NC_016634.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_CCB_US3_UF1_uid81197/NC_016634.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_CCB_US3_UF1_uid81197/NC_017278.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_CCB_US3_UF1_uid81197/NC_017278.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_CCB_US3_UF1_uid81197/NC_017278.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_oshimai_JL_2_uid178948/NC_019386.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_oshimai_JL_2_uid178948/NC_019386.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_oshimai_JL_2_uid178948/NC_019386.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_oshimai_JL_2_uid178948/NC_019387.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_oshimai_JL_2_uid178948/NC_019387.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_oshimai_JL_2_uid178948/NC_019387.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_oshimai_JL_2_uid178948/NC_019388.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_oshimai_JL_2_uid178948/NC_019388.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_oshimai_JL_2_uid178948/NC_019388.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_scotoductus_SA_01_uid62273/NC_014974.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_scotoductus_SA_01_uid62273/NC_014974.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_scotoductus_SA_01_uid62273/NC_014974.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_scotoductus_SA_01_uid62273/NC_014975.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_scotoductus_SA_01_uid62273/NC_014975.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_scotoductus_SA_01_uid62273/NC_014975.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB27_uid58033/NC_005835.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB27_uid58033/NC_005835.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB27_uid58033/NC_005835.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB27_uid58033/NC_005838.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB27_uid58033/NC_005838.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB27_uid58033/NC_005838.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB8_uid58223/NC_006461.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB8_uid58223/NC_006461.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB8_uid58223/NC_006461.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB8_uid58223/NC_006462.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB8_uid58223/NC_006462.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB8_uid58223/NC_006462.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB8_uid58223/NC_006463.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB8_uid58223/NC_006463.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_HB8_uid58223/NC_006463.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_JL_18_uid162129/NC_017587.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_JL_18_uid162129/NC_017587.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_JL_18_uid162129/NC_017587.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_JL_18_uid162129/NC_017588.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_JL_18_uid162129/NC_017588.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_JL_18_uid162129/NC_017588.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_JL_18_uid162129/NC_017590.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_JL_18_uid162129/NC_017590.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_JL_18_uid162129/NC_017590.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_SG0_5JP17_16_uid159537/NC_017272.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_SG0_5JP17_16_uid159537/NC_017272.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_SG0_5JP17_16_uid159537/NC_017272.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_SG0_5JP17_16_uid159537/NC_017273.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_SG0_5JP17_16_uid159537/NC_017273.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thermus_thermophilus_SG0_5JP17_16_uid159537/NC_017273.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalimicrobium_cyclicum_ALM1_uid67391/NC_015581.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalimicrobium_cyclicum_ALM1_uid67391/NC_015581.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalimicrobium_cyclicum_ALM1_uid67391/NC_015581.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_K90mix_uid46181/NC_013889.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_K90mix_uid46181/NC_013889.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_K90mix_uid46181/NC_013889.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_K90mix_uid46181/NC_013930.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_K90mix_uid46181/NC_013930.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_K90mix_uid46181/NC_013930.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_nitratireducens_DSM_14787_uid184011/NC_019902.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_nitratireducens_DSM_14787_uid184011/NC_019902.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_nitratireducens_DSM_14787_uid184011/NC_019902.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_sulfidophilus_HL_EbGr7_uid59179/NC_011901.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_sulfidophilus_HL_EbGr7_uid59179/NC_011901.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioalkalivibrio_sulfidophilus_HL_EbGr7_uid59179/NC_011901.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiobacillus_denitrificans_ATCC_25259_uid58189/NC_007404.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiobacillus_denitrificans_ATCC_25259_uid58189/NC_007404.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiobacillus_denitrificans_ATCC_25259_uid58189/NC_007404.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiocystis_violascens_DSM_198_uid74025/NC_018012.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiocystis_violascens_DSM_198_uid74025/NC_018012.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiocystis_violascens_DSM_198_uid74025/NC_018012.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioflavicoccus_mobilis_8321_uid184343/NC_019940.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioflavicoccus_mobilis_8321_uid184343/NC_019940.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioflavicoccus_mobilis_8321_uid184343/NC_019940.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioflavicoccus_mobilis_8321_uid184343/NC_019941.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioflavicoccus_mobilis_8321_uid184343/NC_019941.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thioflavicoccus_mobilis_8321_uid184343/NC_019941.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomicrospira_crunogena_XCL_2_uid58183/NC_007520.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomicrospira_crunogena_XCL_2_uid58183/NC_007520.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomicrospira_crunogena_XCL_2_uid58183/NC_007520.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_3As_uid178369/NC_014144.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_3As_uid178369/NC_014144.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_3As_uid178369/NC_014144.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_3As_uid178369/NC_014145.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_3As_uid178369/NC_014145.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_3As_uid178369/NC_014145.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_intermedia_K12_uid48825/NC_014153.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_intermedia_K12_uid48825/NC_014153.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_intermedia_K12_uid48825/NC_014153.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_intermedia_K12_uid48825/NC_014154.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_intermedia_K12_uid48825/NC_014154.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_intermedia_K12_uid48825/NC_014154.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_intermedia_K12_uid48825/NC_014155.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_intermedia_K12_uid48825/NC_014155.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Thiomonas_intermedia_K12_uid48825/NC_014155.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017956.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017956.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017956.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017957.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017957.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017957.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017958.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017958.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017958.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017959.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017959.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017959.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017966.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017966.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tistrella_mobilis_KA081020_065_uid167486/NC_017966.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tolumonas_auensis_DSM_9187_uid59395/NC_012691.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tolumonas_auensis_DSM_9187_uid59395/NC_012691.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tolumonas_auensis_DSM_9187_uid59395/NC_012691.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_azotonutricium_ZAS_9_uid67365/NC_015577.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_azotonutricium_ZAS_9_uid67365/NC_015577.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_azotonutricium_ZAS_9_uid67365/NC_015577.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_brennaborense_DSM_12168_uid66607/NC_015500.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_brennaborense_DSM_12168_uid66607/NC_015500.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_brennaborense_DSM_12168_uid66607/NC_015500.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_denticola_ATCC_35405_uid57583/NC_002967.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_denticola_ATCC_35405_uid57583/NC_002967.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_denticola_ATCC_35405_uid57583/NC_002967.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Chicago_uid159543/NC_017268.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Chicago_uid159543/NC_017268.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Chicago_uid159543/NC_017268.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_DAL_1_uid87065/NC_016844.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_DAL_1_uid87065/NC_016844.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_DAL_1_uid87065/NC_016844.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Fribourg_Blanc_uid201428/NC_021179.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Fribourg_Blanc_uid201428/NC_021179.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Fribourg_Blanc_uid201428/NC_021179.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Mexico_A_uid176920/NC_018722.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Mexico_A_uid176920/NC_018722.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Mexico_A_uid176920/NC_018722.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Nichols_uid208669/NC_021490.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Nichols_uid208669/NC_021490.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Nichols_uid208669/NC_021490.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Nichols_uid57585/NC_000919.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Nichols_uid57585/NC_000919.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_Nichols_uid57585/NC_000919.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_SS14_uid58977/NC_010741.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_SS14_uid58977/NC_010741.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_SS14_uid58977/NC_010741.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_SS14_uid58977/NC_021508.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_SS14_uid58977/NC_021508.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_SS14_uid58977/NC_021508.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_pertenue_CDC2_uid87051/NC_016848.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_pertenue_CDC2_uid87051/NC_016848.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_pertenue_CDC2_uid87051/NC_016848.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_pertenue_Gauthier_uid87067/NC_016843.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_pertenue_Gauthier_uid87067/NC_016843.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_pertenue_Gauthier_uid87067/NC_016843.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_pertenue_SamoaD_uid87069/NC_016842.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_pertenue_SamoaD_uid87069/NC_016842.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pallidum_pertenue_SamoaD_uid87069/NC_016842.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_paraluiscuniculi_Cuniculi_A_uid68447/NC_015714.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_paraluiscuniculi_Cuniculi_A_uid68447/NC_015714.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_paraluiscuniculi_Cuniculi_A_uid68447/NC_015714.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pedis_T_A4_uid215715/NC_022097.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pedis_T_A4_uid215715/NC_022097.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_pedis_T_A4_uid215715/NC_022097.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_primitia_ZAS_2_uid67367/NC_015578.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_primitia_ZAS_2_uid67367/NC_015578.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_primitia_ZAS_2_uid67367/NC_015578.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_succinifaciens_DSM_2489_uid65781/NC_015385.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_succinifaciens_DSM_2489_uid65781/NC_015385.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_succinifaciens_DSM_2489_uid65781/NC_015385.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_succinifaciens_DSM_2489_uid65781/NC_015386.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_succinifaciens_DSM_2489_uid65781/NC_015386.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Treponema_succinifaciens_DSM_2489_uid65781/NC_015386.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Trichodesmium_erythraeum_IMS101_uid57925/NC_008312.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Trichodesmium_erythraeum_IMS101_uid57925/NC_008312.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Trichodesmium_erythraeum_IMS101_uid57925/NC_008312.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tropheryma_whipplei_TW08_27_uid57961/NC_004551.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tropheryma_whipplei_TW08_27_uid57961/NC_004551.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tropheryma_whipplei_TW08_27_uid57961/NC_004551.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tropheryma_whipplei_Twist_uid57705/NC_004572.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tropheryma_whipplei_Twist_uid57705/NC_004572.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tropheryma_whipplei_Twist_uid57705/NC_004572.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Truepera_radiovictrix_DSM_17093_uid49533/NC_014221.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Truepera_radiovictrix_DSM_17093_uid49533/NC_014221.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Truepera_radiovictrix_DSM_17093_uid49533/NC_014221.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tsukamurella_paurometabola_DSM_20162_uid48829/NC_014158.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tsukamurella_paurometabola_DSM_20162_uid48829/NC_014158.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tsukamurella_paurometabola_DSM_20162_uid48829/NC_014158.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tsukamurella_paurometabola_DSM_20162_uid48829/NC_014159.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tsukamurella_paurometabola_DSM_20162_uid48829/NC_014159.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Tsukamurella_paurometabola_DSM_20162_uid48829/NC_014159.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Turneriella_parva_DSM_21527_uid168321/NC_018020.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Turneriella_parva_DSM_21527_uid168321/NC_018020.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Turneriella_parva_DSM_21527_uid168321/NC_018020.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Turneriella_parva_DSM_21527_uid168321/NC_018021.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Turneriella_parva_DSM_21527_uid168321/NC_018021.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Turneriella_parva_DSM_21527_uid168321/NC_018021.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ureaplasma_parvum_serovar_3_ATCC_27815_uid58887/NC_010503.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ureaplasma_parvum_serovar_3_ATCC_27815_uid58887/NC_010503.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ureaplasma_parvum_serovar_3_ATCC_27815_uid58887/NC_010503.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ureaplasma_parvum_serovar_3_ATCC_700970_uid57711/NC_002162.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ureaplasma_parvum_serovar_3_ATCC_700970_uid57711/NC_002162.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ureaplasma_parvum_serovar_3_ATCC_700970_uid57711/NC_002162.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ureaplasma_urealyticum_serovar_10_ATCC_33699_uid59011/NC_011374.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ureaplasma_urealyticum_serovar_10_ATCC_33699_uid59011/NC_011374.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Ureaplasma_urealyticum_serovar_10_ATCC_33699_uid59011/NC_011374.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_B4_uid218005/NC_022234.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_B4_uid218005/NC_022234.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_B4_uid218005/NC_022234.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_B4_uid218005/NC_022247.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_B4_uid218005/NC_022247.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_B4_uid218005/NC_022247.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_EPS_uid62107/NC_014931.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_EPS_uid62107/NC_014931.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_EPS_uid62107/NC_014931.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_S110_uid59437/NC_012791.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_S110_uid59437/NC_012791.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_S110_uid59437/NC_012791.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_S110_uid59437/NC_012792.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_S110_uid59437/NC_012792.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Variovorax_paradoxus_S110_uid59437/NC_012792.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Veillonella_parvula_DSM_2008_uid41927/NC_013520.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Veillonella_parvula_DSM_2008_uid41927/NC_013520.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Veillonella_parvula_DSM_2008_uid41927/NC_013520.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verminephrobacter_eiseniae_EF01_2_uid58675/NC_008771.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verminephrobacter_eiseniae_EF01_2_uid58675/NC_008771.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verminephrobacter_eiseniae_EF01_2_uid58675/NC_008771.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verminephrobacter_eiseniae_EF01_2_uid58675/NC_008786.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verminephrobacter_eiseniae_EF01_2_uid58675/NC_008786.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verminephrobacter_eiseniae_EF01_2_uid58675/NC_008786.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verrucosispora_maris_AB_18_032_uid66297/NC_015409.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verrucosispora_maris_AB_18_032_uid66297/NC_015409.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verrucosispora_maris_AB_18_032_uid66297/NC_015409.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verrucosispora_maris_AB_18_032_uid66297/NC_015434.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verrucosispora_maris_AB_18_032_uid66297/NC_015434.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Verrucosispora_maris_AB_18_032_uid66297/NC_015434.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_EJY3_uid83161/NC_016613.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_EJY3_uid83161/NC_016613.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_EJY3_uid83161/NC_016613.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_EJY3_uid83161/NC_016614.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_EJY3_uid83161/NC_016614.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_EJY3_uid83161/NC_016614.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_Ex25_uid41601/NC_013456.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_Ex25_uid41601/NC_013456.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_Ex25_uid41601/NC_013456.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_Ex25_uid41601/NC_013457.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_Ex25_uid41601/NC_013457.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_Ex25_uid41601/NC_013457.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_alginolyticus_NBRC_15630___ATCC_17749_uid199933/NC_022349.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_alginolyticus_NBRC_15630___ATCC_17749_uid199933/NC_022349.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_alginolyticus_NBRC_15630___ATCC_17749_uid199933/NC_022349.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_alginolyticus_NBRC_15630___ATCC_17749_uid199933/NC_022359.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_alginolyticus_NBRC_15630___ATCC_17749_uid199933/NC_022359.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_alginolyticus_NBRC_15630___ATCC_17749_uid199933/NC_022359.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_anguillarum_775_uid68057/NC_015633.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_anguillarum_775_uid68057/NC_015633.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_anguillarum_775_uid68057/NC_015633.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_anguillarum_775_uid68057/NC_015637.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_anguillarum_775_uid68057/NC_015637.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_anguillarum_775_uid68057/NC_015637.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_IEC224_uid89389/NC_016944.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_IEC224_uid89389/NC_016944.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_IEC224_uid89389/NC_016944.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_IEC224_uid89389/NC_016945.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_IEC224_uid89389/NC_016945.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_IEC224_uid89389/NC_016945.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_LMA3984_4_uid159541/NC_017269.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_LMA3984_4_uid159541/NC_017269.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_LMA3984_4_uid159541/NC_017269.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_LMA3984_4_uid159541/NC_017270.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_LMA3984_4_uid159541/NC_017270.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_LMA3984_4_uid159541/NC_017270.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_M66_2_uid59355/NC_012578.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_M66_2_uid59355/NC_012578.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_M66_2_uid59355/NC_012578.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_M66_2_uid59355/NC_012580.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_M66_2_uid59355/NC_012580.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_M66_2_uid59355/NC_012580.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_MJ_1236_uid59387/NC_012667.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_MJ_1236_uid59387/NC_012667.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_MJ_1236_uid59387/NC_012667.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_MJ_1236_uid59387/NC_012668.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_MJ_1236_uid59387/NC_012668.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_MJ_1236_uid59387/NC_012668.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_2010EL_1786_uid78933/NC_016445.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_2010EL_1786_uid78933/NC_016445.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_2010EL_1786_uid78933/NC_016445.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_2010EL_1786_uid78933/NC_016446.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_2010EL_1786_uid78933/NC_016446.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_2010EL_1786_uid78933/NC_016446.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_biovar_El_Tor_N16961_uid57623/NC_002505.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_biovar_El_Tor_N16961_uid57623/NC_002505.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_biovar_El_Tor_N16961_uid57623/NC_002505.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_biovar_El_Tor_N16961_uid57623/NC_002506.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_biovar_El_Tor_N16961_uid57623/NC_002506.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O1_biovar_El_Tor_N16961_uid57623/NC_002506.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid159869/NC_012582.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid159869/NC_012582.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid159869/NC_012582.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid159869/NC_012583.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid159869/NC_012583.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid159869/NC_012583.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid58425/NC_009456.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid58425/NC_009456.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid58425/NC_009456.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid58425/NC_009457.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid58425/NC_009457.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_cholerae_O395_uid58425/NC_009457.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_ES114_uid58163/NC_006840.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_ES114_uid58163/NC_006840.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_ES114_uid58163/NC_006840.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_ES114_uid58163/NC_006841.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_ES114_uid58163/NC_006841.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_ES114_uid58163/NC_006841.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_ES114_uid58163/NC_006842.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_ES114_uid58163/NC_006842.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_ES114_uid58163/NC_006842.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_MJ11_uid58907/NC_011184.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_MJ11_uid58907/NC_011184.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_MJ11_uid58907/NC_011184.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_MJ11_uid58907/NC_011185.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_MJ11_uid58907/NC_011185.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_MJ11_uid58907/NC_011185.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_MJ11_uid58907/NC_011186.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_MJ11_uid58907/NC_011186.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_fischeri_MJ11_uid58907/NC_011186.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_furnissii_NCTC_11218_uid82347/NC_016602.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_furnissii_NCTC_11218_uid82347/NC_016602.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_furnissii_NCTC_11218_uid82347/NC_016602.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_furnissii_NCTC_11218_uid82347/NC_016628.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_furnissii_NCTC_11218_uid82347/NC_016628.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_furnissii_NCTC_11218_uid82347/NC_016628.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid218471/NC_022269.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid218471/NC_022269.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid218471/NC_022269.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid218471/NC_022270.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid218471/NC_022270.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid218471/NC_022270.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid218471/NC_022271.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid218471/NC_022271.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid218471/NC_022271.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid58957/NC_009777.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid58957/NC_009777.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid58957/NC_009777.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid58957/NC_009783.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid58957/NC_009783.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid58957/NC_009783.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid58957/NC_009784.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid58957/NC_009784.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_harveyi_ATCC_BAA_1116_uid58957/NC_009784.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_nigripulchritudo_SnF1_uid222819/NC_022528.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_nigripulchritudo_SnF1_uid222819/NC_022528.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_nigripulchritudo_SnF1_uid222819/NC_022528.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_nigripulchritudo_SnF1_uid222819/NC_022543.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_nigripulchritudo_SnF1_uid222819/NC_022543.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_nigripulchritudo_SnF1_uid222819/NC_022543.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_BB22OP_uid184822/NC_019955.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_BB22OP_uid184822/NC_019955.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_BB22OP_uid184822/NC_019955.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_BB22OP_uid184822/NC_019971.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_BB22OP_uid184822/NC_019971.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_BB22OP_uid184822/NC_019971.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_RIMD_2210633_uid57969/NC_004603.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_RIMD_2210633_uid57969/NC_004603.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_RIMD_2210633_uid57969/NC_004603.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_RIMD_2210633_uid57969/NC_004605.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_RIMD_2210633_uid57969/NC_004605.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_parahaemolyticus_RIMD_2210633_uid57969/NC_004605.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_splendidus_LGP32_uid59353/NC_011744.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_splendidus_LGP32_uid59353/NC_011744.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_splendidus_LGP32_uid59353/NC_011744.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_splendidus_LGP32_uid59353/NC_011753.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_splendidus_LGP32_uid59353/NC_011753.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_splendidus_LGP32_uid59353/NC_011753.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_CMCP6_uid62909/NC_004459.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_CMCP6_uid62909/NC_004459.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_CMCP6_uid62909/NC_004459.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_CMCP6_uid62909/NC_004460.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_CMCP6_uid62909/NC_004460.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_CMCP6_uid62909/NC_004460.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_MO6_24_O_uid62243/NC_014965.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_MO6_24_O_uid62243/NC_014965.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_MO6_24_O_uid62243/NC_014965.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_MO6_24_O_uid62243/NC_014966.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_MO6_24_O_uid62243/NC_014966.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_MO6_24_O_uid62243/NC_014966.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_YJ016_uid58007/NC_005128.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_YJ016_uid58007/NC_005128.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_YJ016_uid58007/NC_005128.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_YJ016_uid58007/NC_005139.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_YJ016_uid58007/NC_005139.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_YJ016_uid58007/NC_005139.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_YJ016_uid58007/NC_005140.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_YJ016_uid58007/NC_005140.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Vibrio_vulnificus_YJ016_uid58007/NC_005140.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Waddlia_chondrophila_WSU_86_1044_uid49531/NC_014225.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Waddlia_chondrophila_WSU_86_1044_uid49531/NC_014225.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Waddlia_chondrophila_WSU_86_1044_uid49531/NC_014225.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Waddlia_chondrophila_WSU_86_1044_uid49531/NC_014226.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Waddlia_chondrophila_WSU_86_1044_uid49531/NC_014226.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Waddlia_chondrophila_WSU_86_1044_uid49531/NC_014226.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Weeksella_virosa_DSM_16922_uid63627/NC_015144.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Weeksella_virosa_DSM_16922_uid63627/NC_015144.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Weeksella_virosa_DSM_16922_uid63627/NC_015144.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Weissella_koreensis_KACC_15510_uid68837/NC_015756.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Weissella_koreensis_KACC_15510_uid68837/NC_015756.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Weissella_koreensis_KACC_15510_uid68837/NC_015756.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Weissella_koreensis_KACC_15510_uid68837/NC_015759.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Weissella_koreensis_KACC_15510_uid68837/NC_015759.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Weissella_koreensis_KACC_15510_uid68837/NC_015759.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wigglesworthia_glossinidia_endosymbiont_of_Glossina_brevipalpis_uid57853/NC_003425.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wigglesworthia_glossinidia_endosymbiont_of_Glossina_brevipalpis_uid57853/NC_003425.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wigglesworthia_glossinidia_endosymbiont_of_Glossina_brevipalpis_uid57853/NC_003425.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wigglesworthia_glossinidia_endosymbiont_of_Glossina_brevipalpis_uid57853/NC_004344.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wigglesworthia_glossinidia_endosymbiont_of_Glossina_brevipalpis_uid57853/NC_004344.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wigglesworthia_glossinidia_endosymbiont_of_Glossina_brevipalpis_uid57853/NC_004344.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wigglesworthia_glossinidia_endosymbiont_of_Glossina_morsitans__Yale_colony__uid88075/NC_016893.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wigglesworthia_glossinidia_endosymbiont_of_Glossina_morsitans__Yale_colony__uid88075/NC_016893.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wigglesworthia_glossinidia_endosymbiont_of_Glossina_morsitans__Yale_colony__uid88075/NC_016893.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_TRS_of_Brugia_malayi_uid58107/NC_006833.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_TRS_of_Brugia_malayi_uid58107/NC_006833.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_TRS_of_Brugia_malayi_uid58107/NC_006833.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Culex_quinquefasciatus_Pel_uid61645/NC_010981.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Culex_quinquefasciatus_Pel_uid61645/NC_010981.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Culex_quinquefasciatus_Pel_uid61645/NC_010981.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Drosophila_melanogaster_uid57851/NC_002978.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Drosophila_melanogaster_uid57851/NC_002978.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Drosophila_melanogaster_uid57851/NC_002978.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Drosophila_simulans_wHa_uid198768/NC_021089.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Drosophila_simulans_wHa_uid198768/NC_021089.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Drosophila_simulans_wHa_uid198768/NC_021089.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Drosophila_simulans_wNo_uid198767/NC_021084.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Drosophila_simulans_wNo_uid198767/NC_021084.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Drosophila_simulans_wNo_uid198767/NC_021084.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Onchocerca_ochengi_uid171829/NC_018267.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Onchocerca_ochengi_uid171829/NC_018267.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_endosymbiont_of_Onchocerca_ochengi_uid171829/NC_018267.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_wRi_uid59371/NC_012416.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_wRi_uid59371/NC_012416.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolbachia_wRi_uid59371/NC_012416.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolinella_succinogenes_DSM_1740_uid61591/NC_005090.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolinella_succinogenes_DSM_1740_uid61591/NC_005090.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Wolinella_succinogenes_DSM_1740_uid61591/NC_005090.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthobacter_autotrophicus_Py2_uid58453/NC_009717.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthobacter_autotrophicus_Py2_uid58453/NC_009717.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthobacter_autotrophicus_Py2_uid58453/NC_009717.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthobacter_autotrophicus_Py2_uid58453/NC_009720.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthobacter_autotrophicus_Py2_uid58453/NC_009720.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthobacter_autotrophicus_Py2_uid58453/NC_009720.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_013722.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_013722.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_013722.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_017555.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_017555.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_017555.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_017556.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_017556.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_017556.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_017557.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_017557.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_albilineans_GPE_PC73_uid43163/NC_017557.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020797.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020797.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020797.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020798.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020798.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020798.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020800.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020800.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020800.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020801.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020801.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_Xac29_1_uid193774/NC_020801.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citri_306_uid57889/NC_003919.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citri_306_uid57889/NC_003919.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citri_306_uid57889/NC_003919.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citri_306_uid57889/NC_003921.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citri_306_uid57889/NC_003921.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citri_306_uid57889/NC_003921.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citri_306_uid57889/NC_003922.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citri_306_uid57889/NC_003922.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citri_306_uid57889/NC_003922.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citrumelo_F1_uid73179/NC_016010.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citrumelo_F1_uid73179/NC_016010.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_axonopodis_citrumelo_F1_uid73179/NC_016010.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_8004_uid57595/NC_007086.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_8004_uid57595/NC_007086.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_8004_uid57595/NC_007086.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_ATCC_33913_uid57887/NC_003902.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_ATCC_33913_uid57887/NC_003902.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_ATCC_33913_uid57887/NC_003902.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_raphani_756C_uid159539/NC_017271.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_raphani_756C_uid159539/NC_017271.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_raphani_756C_uid159539/NC_017271.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_uid61643/NC_010688.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_uid61643/NC_010688.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_uid61643/NC_010688.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007504.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007504.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007504.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007505.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007505.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007505.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007506.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007506.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007506.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007507.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007507.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007507.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007508.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007508.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_campestris_vesicatoria_85_10_uid58321/NC_007508.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_citri_Aw12879_uid194444/NC_020815.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_citri_Aw12879_uid194444/NC_020815.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_citri_Aw12879_uid194444/NC_020815.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_citri_Aw12879_uid194444/NC_020816.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_citri_Aw12879_uid194444/NC_020816.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_citri_Aw12879_uid194444/NC_020816.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_citri_Aw12879_uid194444/NC_020817.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_citri_Aw12879_uid194444/NC_020817.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_citri_Aw12879_uid194444/NC_020817.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022539.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022539.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022539.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022540.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022540.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022540.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022541.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022541.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022541.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022542.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022542.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_fuscans_4834_R_uid222814/NC_022542.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_KACC_10331_uid58155/NC_006834.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_KACC_10331_uid58155/NC_006834.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_KACC_10331_uid58155/NC_006834.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_MAFF_311018_uid58547/NC_007705.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_MAFF_311018_uid58547/NC_007705.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_MAFF_311018_uid58547/NC_007705.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_PXO99A_uid59131/NC_010717.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_PXO99A_uid59131/NC_010717.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_PXO99A_uid59131/NC_010717.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_oryzicola_BLS256_uid54411/NC_017267.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_oryzicola_BLS256_uid54411/NC_017267.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xanthomonas_oryzae_oryzicola_BLS256_uid54411/NC_017267.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xenorhabdus_bovienii_SS_2004_uid46345/NC_013892.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xenorhabdus_bovienii_SS_2004_uid46345/NC_013892.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xenorhabdus_bovienii_SS_2004_uid46345/NC_013892.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xenorhabdus_nematophila_ATCC_19061_uid49133/NC_014170.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xenorhabdus_nematophila_ATCC_19061_uid49133/NC_014170.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xenorhabdus_nematophila_ATCC_19061_uid49133/NC_014170.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xenorhabdus_nematophila_ATCC_19061_uid49133/NC_014228.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xenorhabdus_nematophila_ATCC_19061_uid49133/NC_014228.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xenorhabdus_nematophila_ATCC_19061_uid49133/NC_014228.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylanimonas_cellulosilytica_DSM_15894_uid41935/NC_013530.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylanimonas_cellulosilytica_DSM_15894_uid41935/NC_013530.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylanimonas_cellulosilytica_DSM_15894_uid41935/NC_013530.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylanimonas_cellulosilytica_DSM_15894_uid41935/NC_013531.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylanimonas_cellulosilytica_DSM_15894_uid41935/NC_013531.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylanimonas_cellulosilytica_DSM_15894_uid41935/NC_013531.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_9a5c_uid57849/NC_002488.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_9a5c_uid57849/NC_002488.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_9a5c_uid57849/NC_002488.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_9a5c_uid57849/NC_002489.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_9a5c_uid57849/NC_002489.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_9a5c_uid57849/NC_002489.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_9a5c_uid57849/NC_002490.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_9a5c_uid57849/NC_002490.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_9a5c_uid57849/NC_002490.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_GB514_uid162023/NC_017561.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_GB514_uid162023/NC_017561.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_GB514_uid162023/NC_017561.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_GB514_uid162023/NC_017562.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_GB514_uid162023/NC_017562.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_GB514_uid162023/NC_017562.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_M12_uid58763/NC_010513.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_M12_uid58763/NC_010513.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_M12_uid58763/NC_010513.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_M23_uid58809/NC_010577.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_M23_uid58809/NC_010577.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_M23_uid58809/NC_010577.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_M23_uid58809/NC_010579.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_M23_uid58809/NC_010579.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_M23_uid58809/NC_010579.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_Temecula1_uid57869/NC_004554.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_Temecula1_uid57869/NC_004554.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_Temecula1_uid57869/NC_004554.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_Temecula1_uid57869/NC_004556.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_Temecula1_uid57869/NC_004556.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Xylella_fastidiosa_Temecula1_uid57869/NC_004556.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_8081_uid57741/NC_008791.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_8081_uid57741/NC_008791.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_8081_uid57741/NC_008791.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_8081_uid57741/NC_008800.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_8081_uid57741/NC_008800.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_8081_uid57741/NC_008800.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_105_5R_r__uid63663/NC_015224.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_105_5R_r__uid63663/NC_015224.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_105_5R_r__uid63663/NC_015224.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_105_5R_r__uid63663/NC_015475.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_105_5R_r__uid63663/NC_015475.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_105_5R_r__uid63663/NC_015475.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_Y11_uid162069/NC_017564.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_Y11_uid162069/NC_017564.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_Y11_uid162069/NC_017564.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_Y11_uid162069/NC_017565.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_Y11_uid162069/NC_017565.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_enterocolitica_palearctica_Y11_uid162069/NC_017565.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_A1122_uid158119/NC_017168.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_A1122_uid158119/NC_017168.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_A1122_uid158119/NC_017168.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_A1122_uid158119/NC_017169.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_A1122_uid158119/NC_017169.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_A1122_uid158119/NC_017169.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_A1122_uid158119/NC_017170.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_A1122_uid158119/NC_017170.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_A1122_uid158119/NC_017170.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Angola_uid58485/NC_010157.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Angola_uid58485/NC_010157.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Angola_uid58485/NC_010157.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Angola_uid58485/NC_010158.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Angola_uid58485/NC_010158.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Angola_uid58485/NC_010158.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Angola_uid58485/NC_010159.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Angola_uid58485/NC_010159.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Angola_uid58485/NC_010159.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008120.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008120.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008120.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008121.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008121.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008121.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008122.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008122.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008122.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008150.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008150.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Antiqua_uid58607/NC_008150.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003131.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003131.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003131.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003132.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003132.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003132.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003134.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003134.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003134.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003143.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003143.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_CO92_uid57621/NC_003143.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017153.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017153.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017153.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017154.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017154.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017154.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017155.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017155.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017155.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017156.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017156.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D106004_uid158071/NC_017156.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017157.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017157.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017157.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017158.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017158.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017158.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017159.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017159.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017159.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017160.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017160.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_D182038_uid158073/NC_017160.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_KIM_10_uid57875/NC_004088.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_KIM_10_uid57875/NC_004088.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_KIM_10_uid57875/NC_004088.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_KIM_10_uid57875/NC_004838.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_KIM_10_uid57875/NC_004838.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_KIM_10_uid57875/NC_004838.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Nepal516_uid58609/NC_008118.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Nepal516_uid58609/NC_008118.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Nepal516_uid58609/NC_008118.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Nepal516_uid58609/NC_008119.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Nepal516_uid58609/NC_008119.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Nepal516_uid58609/NC_008119.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Nepal516_uid58609/NC_008149.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Nepal516_uid58609/NC_008149.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Nepal516_uid58609/NC_008149.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Pestoides_F_uid58619/NC_009377.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Pestoides_F_uid58619/NC_009377.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Pestoides_F_uid58619/NC_009377.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Pestoides_F_uid58619/NC_009378.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Pestoides_F_uid58619/NC_009378.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Pestoides_F_uid58619/NC_009378.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Pestoides_F_uid58619/NC_009381.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Pestoides_F_uid58619/NC_009381.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Pestoides_F_uid58619/NC_009381.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014017.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014017.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014017.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014022.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014022.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014022.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014027.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014027.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014027.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014029.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014029.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_Z176003_uid47317/NC_014029.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017263.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017263.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017263.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017264.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017264.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017264.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017265.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017265.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017265.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017266.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017266.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Medievalis_Harbin_35_uid158537/NC_017266.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005810.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005810.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005810.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005813.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005813.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005813.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005814.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005814.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005814.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005815.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005815.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005815.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005816.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005816.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pestis_biovar_Microtus_91001_uid58037/NC_005816.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_31758_uid58487/NC_009704.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_31758_uid58487/NC_009704.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_31758_uid58487/NC_009704.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_31758_uid58487/NC_009705.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_31758_uid58487/NC_009705.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_31758_uid58487/NC_009705.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_31758_uid58487/NC_009708.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_31758_uid58487/NC_009708.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_31758_uid58487/NC_009708.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_32953_uid58157/NC_006153.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_32953_uid58157/NC_006153.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_32953_uid58157/NC_006153.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_32953_uid58157/NC_006154.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_32953_uid58157/NC_006154.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_32953_uid58157/NC_006154.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_32953_uid58157/NC_006155.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_32953_uid58157/NC_006155.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_IP_32953_uid58157/NC_006155.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_PB1__uid59153/NC_010634.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_PB1__uid59153/NC_010634.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_PB1__uid59153/NC_010634.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_PB1__uid59153/NC_010635.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_PB1__uid59153/NC_010635.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_PB1__uid59153/NC_010635.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_YPIII_uid59151/NC_010465.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_YPIII_uid59151/NC_010465.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Yersinia_pseudotuberculosis_YPIII_uid59151/NC_010465.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zobellia_galactanivorans_uid70621/NC_015844.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zobellia_galactanivorans_uid70621/NC_015844.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zobellia_galactanivorans_uid70621/NC_015844.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zunongwangia_profunda_SM_A87_uid48073/NC_014041.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zunongwangia_profunda_SM_A87_uid48073/NC_014041.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zunongwangia_profunda_SM_A87_uid48073/NC_014041.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017180.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017180.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017180.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017181.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017181.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017181.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017182.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017182.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017182.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017183.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017183.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017183.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017184.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017184.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017184.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017185.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017185.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017185.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017262.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017262.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_10988_uid55403/NC_017262.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018145.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018145.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018145.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018146.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018146.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018146.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018147.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018147.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018147.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018148.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018148.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ATCC_29191_uid170612/NC_018148.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022900.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022900.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022900.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022901.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022901.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022901.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022902.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022902.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022902.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022903.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022903.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022903.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022910.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022910.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022910.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022913.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022913.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_CP4___NRRL_B_14023_uid229874/NC_022913.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013355.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013355.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013355.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013356.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013356.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013356.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013357.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013357.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013357.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013358.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013358.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_NCIMB_11163_uid41019/NC_013358.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ZM4_uid58095/NC_006526.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ZM4_uid58095/NC_006526.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_ZM4_uid58095/NC_006526.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_pomaceae_ATCC_29192_uid68445/NC_015709.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_pomaceae_ATCC_29192_uid68445/NC_015709.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_pomaceae_ATCC_29192_uid68445/NC_015709.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_pomaceae_ATCC_29192_uid68445/NC_015715.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_pomaceae_ATCC_29192_uid68445/NC_015715.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_pomaceae_ATCC_29192_uid68445/NC_015715.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_pomaceae_ATCC_29192_uid68445/NC_015716.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_pomaceae_ATCC_29192_uid68445/NC_015716.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/Zymomonas_mobilis_pomaceae_ATCC_29192_uid68445/NC_015716.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Cellvibrio__gilvus_ATCC_13127_uid68143/NC_015671.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Cellvibrio__gilvus_ATCC_13127_uid68143/NC_015671.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Cellvibrio__gilvus_ATCC_13127_uid68143/NC_015671.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Clostridium__sticklandii_uid59585/NC_014614.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Clostridium__sticklandii_uid59585/NC_014614.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Clostridium__sticklandii_uid59585/NC_014614.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Nostoc_azollae__0708_uid49725/NC_014248.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Nostoc_azollae__0708_uid49725/NC_014248.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Nostoc_azollae__0708_uid49725/NC_014248.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Nostoc_azollae__0708_uid49725/NC_014249.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Nostoc_azollae__0708_uid49725/NC_014249.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Nostoc_azollae__0708_uid49725/NC_014249.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Nostoc_azollae__0708_uid49725/NC_014250.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Nostoc_azollae__0708_uid49725/NC_014250.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Nostoc_azollae__0708_uid49725/NC_014250.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Ruminococcus__obeum_uid197165/NC_021022.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Ruminococcus__obeum_uid197165/NC_021022.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Ruminococcus__obeum_uid197165/NC_021022.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Ruminococcus__torques_uid197166/NC_021015.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Ruminococcus__torques_uid197166/NC_021015.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/_Ruminococcus__torques_uid197166/NC_021015.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/alpha_proteobacterium_HIMB59_uid175778/NC_018644.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/alpha_proteobacterium_HIMB59_uid175778/NC_018644.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/alpha_proteobacterium_HIMB59_uid175778/NC_018644.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/alpha_proteobacterium_HIMB5_uid175779/NC_018643.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/alpha_proteobacterium_HIMB5_uid175779/NC_018643.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/alpha_proteobacterium_HIMB5_uid175779/NC_018643.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/archaeon_Mx1201_uid196597/NC_020913.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/archaeon_Mx1201_uid196597/NC_020913.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/archaeon_Mx1201_uid196597/NC_020913.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/bacterium_BT_1_uid184079/NC_019907.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/bacterium_BT_1_uid184079/NC_019907.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/bacterium_BT_1_uid184079/NC_019907.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/beta_proteobacterium_CB_uid191340/NC_020417.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/beta_proteobacterium_CB_uid191340/NC_020417.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/beta_proteobacterium_CB_uid191340/NC_020417.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/butyrate_producing_bacterium_SM4_1_uid197180/NC_021024.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/butyrate_producing_bacterium_SM4_1_uid197180/NC_021024.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/butyrate_producing_bacterium_SM4_1_uid197180/NC_021024.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/butyrate_producing_bacterium_SS3_4_uid197159/NC_021035.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/butyrate_producing_bacterium_SS3_4_uid197159/NC_021035.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/butyrate_producing_bacterium_SS3_4_uid197159/NC_021035.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/butyrate_producing_bacterium_SSC_2_uid197181/NC_021016.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/butyrate_producing_bacterium_SSC_2_uid197181/NC_021016.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/butyrate_producing_bacterium_SSC_2_uid197181/NC_021016.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/candidate_division_SR1_bacterium_RAAC1_SR1_1_uid230714/NC_023002.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/candidate_division_SR1_bacterium_RAAC1_SR1_1_uid230714/NC_023002.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/candidate_division_SR1_bacterium_RAAC1_SR1_1_uid230714/NC_023002.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/candidate_division_WWE3_bacterium_RAAC2_WWE3_1_uid230713/NC_023001.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/candidate_division_WWE3_bacterium_RAAC2_WWE3_1_uid230713/NC_023001.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/candidate_division_WWE3_bacterium_RAAC2_WWE3_1_uid230713/NC_023001.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/cyanobacterium_UCYN_A_uid43697/NC_013771.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/cyanobacterium_UCYN_A_uid43697/NC_013771.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/cyanobacterium_UCYN_A_uid43697/NC_013771.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/delta_proteobacterium_BABL1_uid230716/NC_023003.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/delta_proteobacterium_BABL1_uid230716/NC_023003.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/delta_proteobacterium_BABL1_uid230716/NC_023003.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/gamma_proteobacterium_HdN1_uid51635/NC_014366.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/gamma_proteobacterium_HdN1_uid51635/NC_014366.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/gamma_proteobacterium_HdN1_uid51635/NC_014366.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022106.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022106.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022106.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022107.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022107.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022107.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022108.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022108.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022108.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022109.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022109.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022109.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022110.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022110.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022110.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022117.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022117.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022117.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022118.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022118.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022118.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022119.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022119.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022119.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022120.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022120.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022120.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022121.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022121.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multiisoloate_uid216090/NC_022121.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021821.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021821.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021821.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021822.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021822.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021822.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021823.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021823.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021823.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021824.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021824.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021824.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021825.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021825.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021825.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021826.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021826.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021826.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021827.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021827.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021827.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021828.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021828.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021828.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021834.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021834.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021834.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021837.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021837.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021837.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021838.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021838.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021838.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021839.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021839.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021839.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021840.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021840.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021840.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021847.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021847.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021847.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021848.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021848.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_021848.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022045.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022045.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022045.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022046.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022046.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022046.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022047.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022047.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022047.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022051.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022051.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/multispecies_uid212977/NC_022051.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/secondary_endosymbiont_of_Ctenarytaina_eucalypti_uid172737/NC_018419.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/secondary_endosymbiont_of_Ctenarytaina_eucalypti_uid172737/NC_018419.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/secondary_endosymbiont_of_Ctenarytaina_eucalypti_uid172737/NC_018419.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/secondary_endosymbiont_of_Heteropsylla_cubana_Thao2000_uid172738/NC_018420.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/secondary_endosymbiont_of_Heteropsylla_cubana_Thao2000_uid172738/NC_018420.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/secondary_endosymbiont_of_Heteropsylla_cubana_Thao2000_uid172738/NC_018420.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/syncytium_symbiont_of_Diaphorina_citri_uid213384/NC_021885.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/syncytium_symbiont_of_Diaphorina_citri_uid213384/NC_021885.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/syncytium_symbiont_of_Diaphorina_citri_uid213384/NC_021885.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/syncytium_symbiont_of_Diaphorina_citri_uid213384/NC_021886.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/syncytium_symbiont_of_Diaphorina_citri_uid213384/NC_021886.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/syncytium_symbiont_of_Diaphorina_citri_uid213384/NC_021886.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Sulfuricurvum_RIFRC_1_uid193658/NC_020503.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Sulfuricurvum_RIFRC_1_uid193658/NC_020503.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Sulfuricurvum_RIFRC_1_uid193658/NC_020503.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Sulfuricurvum_RIFRC_1_uid193658/NC_020505.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Sulfuricurvum_RIFRC_1_uid193658/NC_020505.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Sulfuricurvum_RIFRC_1_uid193658/NC_020505.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020419.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020419.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020419.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020420.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020420.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020420.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020421.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020421.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020421.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020422.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020422.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NC_020422.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000191.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000191.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000191.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000192.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000192.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000192.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000193.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000193.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000193.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000194.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000194.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/all_prokaryotes/2015-05-07-prokaryotes/uncultured_Termite_group_1_bacterium_phylotype_Rs_D17_uid59059/NS_000194.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Acidianus_hospitalis_W1_uid66875/NC_015518.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Acidianus_hospitalis_W1_uid66875/NC_015518.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Acidianus_hospitalis_W1_uid66875/NC_015518.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Acidilobus_saccharovorans_345_15_uid51395/NC_014374.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Acidilobus_saccharovorans_345_15_uid51395/NC_014374.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Acidilobus_saccharovorans_345_15_uid51395/NC_014374.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Aeropyrum_camini_SY1___JCM_12091_uid222311/NC_022521.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Aeropyrum_camini_SY1___JCM_12091_uid222311/NC_022521.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Aeropyrum_camini_SY1___JCM_12091_uid222311/NC_022521.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Aeropyrum_pernix_K1_uid57757/NC_000854.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Aeropyrum_pernix_K1_uid57757/NC_000854.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Aeropyrum_pernix_K1_uid57757/NC_000854.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Caldisphaera_lagunensis_DSM_15908_uid183486/NC_019791.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Caldisphaera_lagunensis_DSM_15908_uid183486/NC_019791.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Caldisphaera_lagunensis_DSM_15908_uid183486/NC_019791.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Caldivirga_maquilingensis_IC_167_uid58711/NC_009954.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Caldivirga_maquilingensis_IC_167_uid58711/NC_009954.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Caldivirga_maquilingensis_IC_167_uid58711/NC_009954.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Desulfurococcus_fermentans_DSM_16532_uid75119/NC_018001.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Desulfurococcus_fermentans_DSM_16532_uid75119/NC_018001.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Desulfurococcus_fermentans_DSM_16532_uid75119/NC_018001.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Desulfurococcus_kamchatkensis_1221n_uid59133/NC_011766.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Desulfurococcus_kamchatkensis_1221n_uid59133/NC_011766.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Desulfurococcus_kamchatkensis_1221n_uid59133/NC_011766.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Desulfurococcus_mucosus_DSM_2162_uid62227/NC_014961.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Desulfurococcus_mucosus_DSM_2162_uid62227/NC_014961.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Desulfurococcus_mucosus_DSM_2162_uid62227/NC_014961.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Fervidicoccus_fontis_Kam940_uid162201/NC_017461.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Fervidicoccus_fontis_Kam940_uid162201/NC_017461.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Fervidicoccus_fontis_Kam940_uid162201/NC_017461.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Hyperthermus_butylicus_DSM_5456_uid57755/NC_008818.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Hyperthermus_butylicus_DSM_5456_uid57755/NC_008818.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Hyperthermus_butylicus_DSM_5456_uid57755/NC_008818.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Ignicoccus_hospitalis_KIN4_I_uid58365/NC_009776.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Ignicoccus_hospitalis_KIN4_I_uid58365/NC_009776.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Ignicoccus_hospitalis_KIN4_I_uid58365/NC_009776.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Ignisphaera_aggregans_DSM_17230_uid51875/NC_014471.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Ignisphaera_aggregans_DSM_17230_uid51875/NC_014471.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Ignisphaera_aggregans_DSM_17230_uid51875/NC_014471.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Metallosphaera_cuprina_Ar_4_uid66329/NC_015435.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Metallosphaera_cuprina_Ar_4_uid66329/NC_015435.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Metallosphaera_cuprina_Ar_4_uid66329/NC_015435.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Metallosphaera_sedula_DSM_5348_uid58717/NC_009440.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Metallosphaera_sedula_DSM_5348_uid58717/NC_009440.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Metallosphaera_sedula_DSM_5348_uid58717/NC_009440.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_aerophilum_IM2_uid57727/NC_003364.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_aerophilum_IM2_uid57727/NC_003364.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_aerophilum_IM2_uid57727/NC_003364.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_arsenaticum_DSM_13514_uid58409/NC_009376.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_arsenaticum_DSM_13514_uid58409/NC_009376.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_arsenaticum_DSM_13514_uid58409/NC_009376.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_calidifontis_JCM_11548_uid58787/NC_009073.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_calidifontis_JCM_11548_uid58787/NC_009073.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_calidifontis_JCM_11548_uid58787/NC_009073.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_islandicum_DSM_4184_uid58635/NC_008701.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_islandicum_DSM_4184_uid58635/NC_008701.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_islandicum_DSM_4184_uid58635/NC_008701.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_neutrophilum_V24Sta_uid58421/NC_010525.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_neutrophilum_V24Sta_uid58421/NC_010525.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_neutrophilum_V24Sta_uid58421/NC_010525.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_oguniense_TE7_uid84411/NC_016885+NC_016886.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_oguniense_TE7_uid84411/NC_016885+NC_016886.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_oguniense_TE7_uid84411/NC_016885+NC_016886.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_oguniense_TE7_uid84411/NC_016885.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_oguniense_TE7_uid84411/NC_016885.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_oguniense_TE7_uid84411/NC_016885.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_oguniense_TE7_uid84411/NC_016886.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_oguniense_TE7_uid84411/NC_016886.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrobaculum_oguniense_TE7_uid84411/NC_016886.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrolobus_fumarii_1A_uid73415/NC_015931.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrolobus_fumarii_1A_uid73415/NC_015931.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Pyrolobus_fumarii_1A_uid73415/NC_015931.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Staphylothermus_hellenicus_DSM_12710_uid45893/NC_014205.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Staphylothermus_hellenicus_DSM_12710_uid45893/NC_014205.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Staphylothermus_hellenicus_DSM_12710_uid45893/NC_014205.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Staphylothermus_marinus_F1_uid58719/NC_009033.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Staphylothermus_marinus_F1_uid58719/NC_009033.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Staphylothermus_marinus_F1_uid58719/NC_009033.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_DSM_639_uid58379/NC_007181.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_DSM_639_uid58379/NC_007181.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_DSM_639_uid58379/NC_007181.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_N8_uid189027/NC_020246.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_N8_uid189027/NC_020246.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_N8_uid189027/NC_020246.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_Ron12_I_uid189028/NC_020247.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_Ron12_I_uid189028/NC_020247.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_Ron12_I_uid189028/NC_020247.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_SUSAZ_uid232254/NC_023069.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_SUSAZ_uid232254/NC_023069.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_acidocaldarius_SUSAZ_uid232254/NC_023069.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_HVE10_4_uid162067/NC_017275.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_HVE10_4_uid162067/NC_017275.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_HVE10_4_uid162067/NC_017275.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_LAL14_1_uid197216/NC_021058.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_LAL14_1_uid197216/NC_021058.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_LAL14_1_uid197216/NC_021058.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_D_8_5_uid43679/NC_013769-NC_013770.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_D_8_5_uid43679/NC_013769-NC_013770.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_D_8_5_uid43679/NC_013769-NC_013770.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_D_8_5_uid43679/NC_013769.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_D_8_5_uid43679/NC_013769.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_D_8_5_uid43679/NC_013769.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_D_8_5_uid43679/NC_013770.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_D_8_5_uid43679/NC_013770.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_D_8_5_uid43679/NC_013770.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_S_2_15_uid58871/NC_012589.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_S_2_15_uid58871/NC_012589.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_L_S_2_15_uid58871/NC_012589.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_M_14_25_uid58849/NC_012588.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_M_14_25_uid58849/NC_012588.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_M_14_25_uid58849/NC_012588.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_M_16_27_uid58851/NC_012632.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_M_16_27_uid58851/NC_012632.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_M_16_27_uid58851/NC_012632.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_M_16_4_uid58841/NC_012726.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_M_16_4_uid58841/NC_012726.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_M_16_4_uid58841/NC_012726.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_REY15A_uid162071/NC_017276.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_REY15A_uid162071/NC_017276.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_REY15A_uid162071/NC_017276.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_G_57_14_uid58923/NC_012622.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_G_57_14_uid58923/NC_012622.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_G_57_14_uid58923/NC_012622.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_N_15_51_uid58825/NC_012623-NC_012624.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_N_15_51_uid58825/NC_012623-NC_012624.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_N_15_51_uid58825/NC_012623-NC_012624.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_N_15_51_uid58825/NC_012623.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_N_15_51_uid58825/NC_012623.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_N_15_51_uid58825/NC_012623.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_N_15_51_uid58825/NC_012624.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_N_15_51_uid58825/NC_012624.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_islandicus_Y_N_15_51_uid58825/NC_012624.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_solfataricus_98_2_uid167998/NC_017274.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_solfataricus_98_2_uid167998/NC_017274.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_solfataricus_98_2_uid167998/NC_017274.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_solfataricus_P2-ASM700v1/GCA_000007005.1_ASM700v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_solfataricus_P2-ASM700v1/GCA_000007005.1_ASM700v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_solfataricus_P2-ASM700v1/GCA_000007005.1_ASM700v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_solfataricus_P2_uid57721/NC_002754.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_solfataricus_P2_uid57721/NC_002754.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_solfataricus_P2_uid57721/NC_002754.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_tokodaii_7_uid57807/NC_003106.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_tokodaii_7_uid57807/NC_003106.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Sulfolobus_tokodaii_7_uid57807/NC_003106.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermofilum_pendens_Hrk_5_uid58563/NC_008696-NC_008698.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermofilum_pendens_Hrk_5_uid58563/NC_008696-NC_008698.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermofilum_pendens_Hrk_5_uid58563/NC_008696-NC_008698.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermofilum_pendens_Hrk_5_uid58563/NC_008696.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermofilum_pendens_Hrk_5_uid58563/NC_008696.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermofilum_pendens_Hrk_5_uid58563/NC_008696.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermofilum_pendens_Hrk_5_uid58563/NC_008698.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermofilum_pendens_Hrk_5_uid58563/NC_008698.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermofilum_pendens_Hrk_5_uid58563/NC_008698.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermoproteus_tenax_Kra_1_uid74443/NC_016070.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermoproteus_tenax_Kra_1_uid74443/NC_016070.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermoproteus_tenax_Kra_1_uid74443/NC_016070.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermoproteus_uzoniensis_768_20_uid65089/NC_015315.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermoproteus_uzoniensis_768_20_uid65089/NC_015315.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermoproteus_uzoniensis_768_20_uid65089/NC_015315.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermosphaera_aggregans_DSM_11486_uid48993/NC_014160.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermosphaera_aggregans_DSM_11486_uid48993/NC_014160.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Thermosphaera_aggregans_DSM_11486_uid48993/NC_014160.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Vulcanisaeta_distributa_DSM_14429_uid52827/NC_014537.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Vulcanisaeta_distributa_DSM_14429_uid52827/NC_014537.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Vulcanisaeta_distributa_DSM_14429_uid52827/NC_014537.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Vulcanisaeta_moutnovskia_768_28_uid63631/NC_015151.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Vulcanisaeta_moutnovskia_768_28_uid63631/NC_015151.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Crenarchaeota/Vulcanisaeta_moutnovskia_768_28_uid63631/NC_015151.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Aciduliprofundum_boonei_T469_uid43333/NC_013926.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Aciduliprofundum_boonei_T469_uid43333/NC_013926.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Aciduliprofundum_boonei_T469_uid43333/NC_013926.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_fulgidus_DSM_4304_uid57717/NC_000917.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_fulgidus_DSM_4304_uid57717/NC_000917.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_fulgidus_DSM_4304_uid57717/NC_000917.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_profundus_DSM_5631_uid43493/NC_013741-NC_013742.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_profundus_DSM_5631_uid43493/NC_013741-NC_013742.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_profundus_DSM_5631_uid43493/NC_013741-NC_013742.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_profundus_DSM_5631_uid43493/NC_013741.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_profundus_DSM_5631_uid43493/NC_013741.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_profundus_DSM_5631_uid43493/NC_013741.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_profundus_DSM_5631_uid43493/NC_013742.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_profundus_DSM_5631_uid43493/NC_013742.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_profundus_DSM_5631_uid43493/NC_013742.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_sulfaticallidus_PM70_1_uid201033/NC_021169.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_sulfaticallidus_PM70_1_uid201033/NC_021169.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_sulfaticallidus_PM70_1_uid201033/NC_021169.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_veneficus_SNP6_uid65269/NC_015320.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_veneficus_SNP6_uid65269/NC_015320.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Archaeoglobus_veneficus_SNP6_uid65269/NC_015320.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Ferroglobus_placidus_DSM_10642_uid40863/NC_013849.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Ferroglobus_placidus_DSM_10642_uid40863/NC_013849.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Ferroglobus_placidus_DSM_10642_uid40863/NC_013849.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Ferroplasma_acidarmanus_fer1_uid54095/NC_021592.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Ferroplasma_acidarmanus_fer1_uid54095/NC_021592.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Ferroplasma_acidarmanus_fer1_uid54095/NC_021592.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014297.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014297.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014297.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014298.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014298.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014298.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014299.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014299.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014299.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014300.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014300.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014300.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014301.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014301.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014301.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014302.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014302.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014302.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014303.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014303.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/NC_014303.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halalkalicoccus_jeotgali_B3_uid50305/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/NC_015943.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/NC_015943.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/NC_015943.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/NC_015944.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/NC_015944.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/NC_015944.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/NC_015948.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/NC_015948.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/NC_015948.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_ATCC_33960_uid72475/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023010.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023010.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023010.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023011.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023011.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023011.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023012.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023012.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023012.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023013.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023013.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/NC_023013.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_hispanica_N601_uid230920/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006389.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006389.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006389.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006390.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006390.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006390.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006391.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006391.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006391.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006392.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006392.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006392.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006393.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006393.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006393.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006394.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006394.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006394.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006395.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006395.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006395.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006396.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006396.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006396.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006397.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006397.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/NC_006397.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloarcula_marismortui_ATCC_43049_uid57719/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010364.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010364.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010364.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010366.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010366.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010366.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010367.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010367.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010367.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010368.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010368.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010368.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010369.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010369.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/NC_010369.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halobacterium_salinarum_R1_uid61571/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017941.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017941.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017941.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017942.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017942.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017942.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017943.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017943.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017943.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017944.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017944.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/NC_017944.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_mediterranei_ATCC_33500_uid167315/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013964.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013964.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013964.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013965.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013965.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013965.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013966.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013966.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013966.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013967.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013967.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013967.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013968.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013968.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/NC_013968.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014729.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014729.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014729.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014731.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014731.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014731.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014732.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014732.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014732.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014735.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014735.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014735.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014736.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014736.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014736.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014737.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014737.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014737.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halomicrobium_mukohataei_DSM_12286_uid59107/NC_013201.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halomicrobium_mukohataei_DSM_12286_uid59107/NC_013201.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halomicrobium_mukohataei_DSM_12286_uid59107/NC_013201.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halomicrobium_mukohataei_DSM_12286_uid59107/NC_013202-NC_013201.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halomicrobium_mukohataei_DSM_12286_uid59107/NC_013202-NC_013201.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halomicrobium_mukohataei_DSM_12286_uid59107/NC_013202-NC_013201.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halomicrobium_mukohataei_DSM_12286_uid59107/NC_013202.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halomicrobium_mukohataei_DSM_12286_uid59107/NC_013202.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halomicrobium_mukohataei_DSM_12286_uid59107/NC_013202.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015658.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015658.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015658.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015659.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015659.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015659.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015666.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015666.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015666.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015667.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015667.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/NC_015667.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halopiger_xanaduensis_SH_6_uid68105/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017457.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017457.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017457.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017458.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017458.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017458.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017459.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017459.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017459.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017460.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017460.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/NC_017460.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_C23_uid162019/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_DSM_16790_uid58673/NC_008212-NC_008213.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_DSM_16790_uid58673/NC_008212-NC_008213.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_DSM_16790_uid58673/NC_008212-NC_008213.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_DSM_16790_uid58673/NC_008212.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_DSM_16790_uid58673/NC_008212.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_DSM_16790_uid58673/NC_008212.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_DSM_16790_uid58673/NC_008213.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_DSM_16790_uid58673/NC_008213.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloquadratum_walsbyi_DSM_16790_uid58673/NC_008213.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_tiamatea_SARL4B_uid214082/NC_021913-NC_021921.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_tiamatea_SARL4B_uid214082/NC_021913-NC_021921.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_tiamatea_SARL4B_uid214082/NC_021913-NC_021921.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_tiamatea_SARL4B_uid214082/NC_021913.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_tiamatea_SARL4B_uid214082/NC_021913.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_tiamatea_SARL4B_uid214082/NC_021913.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_tiamatea_SARL4B_uid214082/NC_021921.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_tiamatea_SARL4B_uid214082/NC_021921.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_tiamatea_SARL4B_uid214082/NC_021921.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_utahensis_DSM_12940_uid59189/NC_013158.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_utahensis_DSM_12940_uid59189/NC_013158.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorhabdus_utahensis_DSM_12940_uid59189/NC_013158.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/NC_012028.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/NC_012028.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/NC_012028.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/NC_012029.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/NC_012029.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/NC_012029.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/NC_012030.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/NC_012030.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/NC_012030.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halorubrum_lacusprofundi_ATCC_49239_uid58807/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013743.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013743.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013743.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013744.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013744.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013744.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013745.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013745.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013745.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013746.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013746.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013746.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013747.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013747.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013747.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013748.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013748.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013748.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013749.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013749.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/NC_013749.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Haloterrigena_turkmenica_DSM_5511_uid43501/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halovivax_ruber_XH_70_uid184819/NC_019964.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halovivax_ruber_XH_70_uid184819/NC_019964.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Halovivax_ruber_XH_70_uid184819/NC_019964.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanobrevibacter_ruminantium_M1_uid45857/NC_013790.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanobrevibacter_ruminantium_M1_uid45857/NC_013790.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanobrevibacter_ruminantium_M1_uid45857/NC_013790.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanobrevibacter_smithii_ATCC_35061_uid58827/NC_009515.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanobrevibacter_smithii_ATCC_35061_uid58827/NC_009515.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanobrevibacter_smithii_ATCC_35061_uid58827/NC_009515.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_fervens_AG86_uid59347/NC_013156.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_fervens_AG86_uid59347/NC_013156.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_fervens_AG86_uid59347/NC_013156.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_fervens_AG86_uid59347/NC_013157.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_fervens_AG86_uid59347/NC_013157.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_fervens_AG86_uid59347/NC_013157.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_fervens_AG86_uid59347/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_fervens_AG86_uid59347/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_fervens_AG86_uid59347/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_infernus_ME_uid48803/NC_014122.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_infernus_ME_uid48803/NC_014122.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_infernus_ME_uid48803/NC_014122.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/NC_000909.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/NC_000909.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/NC_000909.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/NC_001732.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/NC_001732.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/NC_001732.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/NC_001733.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/NC_001733.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/NC_001733.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_jannaschii_DSM_2661_uid57713/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/NC_013407.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/NC_013407.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/NC_013407.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/NC_013408.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/NC_013408.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/NC_013408.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/NC_013409.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/NC_013409.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/NC_013409.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocaldococcus_vulcanius_M7_uid41131/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocella_arvoryzae_MRE50_uid61623/NC_009464.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocella_arvoryzae_MRE50_uid61623/NC_009464.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocella_arvoryzae_MRE50_uid61623/NC_009464.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocella_conradii_HZ254_uid157911/NC_017034.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocella_conradii_HZ254_uid157911/NC_017034.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocella_conradii_HZ254_uid157911/NC_017034.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocella_paludicola_SANAE_uid42887/NC_013665.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocella_paludicola_SANAE_uid42887/NC_013665.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocella_paludicola_SANAE_uid42887/NC_013665.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcoides_burtonii_DSM_6242_uid58023/NC_007955.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcoides_burtonii_DSM_6242_uid58023/NC_007955.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcoides_burtonii_DSM_6242_uid58023/NC_007955.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_aeolicus_Nankai_3_uid58823/NC_009635.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_aeolicus_Nankai_3_uid58823/NC_009635.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_aeolicus_Nankai_3_uid58823/NC_009635.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C5_uid58741/NC_009135.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C5_uid58741/NC_009135.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C5_uid58741/NC_009135.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C5_uid58741/NC_009136.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C5_uid58741/NC_009136.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C5_uid58741/NC_009136.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C6_uid58947/NC_009975.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C6_uid58947/NC_009975.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C6_uid58947/NC_009975.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C7_uid58847/NC_009637.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C7_uid58847/NC_009637.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_C7_uid58847/NC_009637.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_S2_uid58035/NC_005791.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_S2_uid58035/NC_005791.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_S2_uid58035/NC_005791.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_X1_uid70729/NC_015847.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_X1_uid70729/NC_015847.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_maripaludis_X1_uid70729/NC_015847.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_vannielii_SB_uid58767/NC_009634.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_vannielii_SB_uid58767/NC_009634.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_vannielii_SB_uid58767/NC_009634.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_voltae_A3_uid49529/NC_014222.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_voltae_A3_uid49529/NC_014222.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanococcus_voltae_A3_uid49529/NC_014222.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocorpusculum_labreanum_Z_uid58785/NC_008942.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocorpusculum_labreanum_Z_uid58785/NC_008942.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanocorpusculum_labreanum_Z_uid58785/NC_008942.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanoculleus_bourgensis_MS2_uid171377/NC_018227.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanoculleus_bourgensis_MS2_uid171377/NC_018227.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanoculleus_bourgensis_MS2_uid171377/NC_018227.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanoculleus_marisnigri_JR1_uid58561/NC_009051.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanoculleus_marisnigri_JR1_uid58561/NC_009051.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanoculleus_marisnigri_JR1_uid58561/NC_009051.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalobium_evestigatum_Z_7303_uid49857/NC_014253.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalobium_evestigatum_Z_7303_uid49857/NC_014253.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalobium_evestigatum_Z_7303_uid49857/NC_014253.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalobium_evestigatum_Z_7303_uid49857/NC_014254.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalobium_evestigatum_Z_7303_uid49857/NC_014254.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalobium_evestigatum_Z_7303_uid49857/NC_014254.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalobium_evestigatum_Z_7303_uid49857/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalobium_evestigatum_Z_7303_uid49857/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalobium_evestigatum_Z_7303_uid49857/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalophilus_mahii_DSM_5219_uid47313/NC_014002.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalophilus_mahii_DSM_5219_uid47313/NC_014002.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanohalophilus_mahii_DSM_5219_uid47313/NC_014002.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanolobus_psychrophilus_R15_uid177925/NC_018876.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanolobus_psychrophilus_R15_uid177925/NC_018876.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanolobus_psychrophilus_R15_uid177925/NC_018876.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanomethylovorans_hollandica_DSM_15978_uid184864/NC_019972.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanomethylovorans_hollandica_DSM_15978_uid184864/NC_019972.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanomethylovorans_hollandica_DSM_15978_uid184864/NC_019972.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanomethylovorans_hollandica_DSM_15978_uid184864/NC_019977.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanomethylovorans_hollandica_DSM_15978_uid184864/NC_019977.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanomethylovorans_hollandica_DSM_15978_uid184864/NC_019977.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanomethylovorans_hollandica_DSM_15978_uid184864/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanomethylovorans_hollandica_DSM_15978_uid184864/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanomethylovorans_hollandica_DSM_15978_uid184864/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanopyrus_kandleri_AV19_uid57883/NC_003551.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanopyrus_kandleri_AV19_uid57883/NC_003551.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanopyrus_kandleri_AV19_uid57883/NC_003551.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanoregula_boonei_6A8_uid58815/NC_009712.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanoregula_boonei_6A8_uid58815/NC_009712.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanoregula_boonei_6A8_uid58815/NC_009712.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_concilii_GP6_uid66207/NC_015416.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_concilii_GP6_uid66207/NC_015416.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_concilii_GP6_uid66207/NC_015416.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_concilii_GP6_uid66207/NC_015430.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_concilii_GP6_uid66207/NC_015430.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_concilii_GP6_uid66207/NC_015430.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_concilii_GP6_uid66207/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_concilii_GP6_uid66207/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_concilii_GP6_uid66207/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_harundinacea_6Ac_uid81199/NC_016637.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_harundinacea_6Ac_uid81199/NC_016637.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_harundinacea_6Ac_uid81199/NC_016637.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_harundinacea_6Ac_uid81199/NC_017527.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_harundinacea_6Ac_uid81199/NC_017527.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_harundinacea_6Ac_uid81199/NC_017527.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_harundinacea_6Ac_uid81199/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_harundinacea_6Ac_uid81199/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_harundinacea_6Ac_uid81199/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_thermophila_PT_uid58469/NC_008553.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_thermophila_PT_uid58469/NC_008553.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosaeta_thermophila_PT_uid58469/NC_008553.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosalsum_zhilinae_DSM_4017_uid68249/NC_015676.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosalsum_zhilinae_DSM_4017_uid68249/NC_015676.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosalsum_zhilinae_DSM_4017_uid68249/NC_015676.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_acetivorans_C2A_uid57879/NC_003552.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_acetivorans_C2A_uid57879/NC_003552.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_acetivorans_C2A_uid57879/NC_003552.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_barkeri_Fusaro_uid57715/NC_007349.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_barkeri_Fusaro_uid57715/NC_007349.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_barkeri_Fusaro_uid57715/NC_007349.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_barkeri_Fusaro_uid57715/NC_007355.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_barkeri_Fusaro_uid57715/NC_007355.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_barkeri_Fusaro_uid57715/NC_007355.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_barkeri_Fusaro_uid57715/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_barkeri_Fusaro_uid57715/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_barkeri_Fusaro_uid57715/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_mazei_Go1_uid57893/NC_003901.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_mazei_Go1_uid57893/NC_003901.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_mazei_Go1_uid57893/NC_003901.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_mazei_Tuc01_uid190185/NC_020389.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_mazei_Tuc01_uid190185/NC_020389.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosarcina_mazei_Tuc01_uid190185/NC_020389.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosphaera_stadtmanae_DSM_3091_uid58407/NC_007681.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosphaera_stadtmanae_DSM_3091_uid58407/NC_007681.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosphaera_stadtmanae_DSM_3091_uid58407/NC_007681.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosphaerula_palustris_E1_9c_uid59193/NC_011832.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosphaerula_palustris_E1_9c_uid59193/NC_011832.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanosphaerula_palustris_E1_9c_uid59193/NC_011832.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanospirillum_hungatei_JF_1_uid58181/NC_007796.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanospirillum_hungatei_JF_1_uid58181/NC_007796.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanospirillum_hungatei_JF_1_uid58181/NC_007796.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_marburgensis_Marburg_uid51637/NC_014408.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_marburgensis_Marburg_uid51637/NC_014408.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_marburgensis_Marburg_uid51637/NC_014408.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_marburgensis_Marburg_uid51637/NC_014409.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_marburgensis_Marburg_uid51637/NC_014409.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_marburgensis_Marburg_uid51637/NC_014409.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_marburgensis_Marburg_uid51637/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_marburgensis_Marburg_uid51637/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_marburgensis_Marburg_uid51637/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_thermautotrophicus_Delta_H_uid57877/NC_000916.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_thermautotrophicus_Delta_H_uid57877/NC_000916.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermobacter_thermautotrophicus_Delta_H_uid57877/NC_000916.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermococcus_okinawensis_IH1_uid51535/NC_015632.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermococcus_okinawensis_IH1_uid51535/NC_015632.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermococcus_okinawensis_IH1_uid51535/NC_015632.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermococcus_okinawensis_IH1_uid51535/NC_015636.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermococcus_okinawensis_IH1_uid51535/NC_015636.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermococcus_okinawensis_IH1_uid51535/NC_015636.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermococcus_okinawensis_IH1_uid51535/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermococcus_okinawensis_IH1_uid51535/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermococcus_okinawensis_IH1_uid51535/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermus_fervidus_DSM_2088_uid60167/NC_014658.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermus_fervidus_DSM_2088_uid60167/NC_014658.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanothermus_fervidus_DSM_2088_uid60167/NC_014658.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanotorris_igneus_Kol_5_uid67321/NC_015562.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanotorris_igneus_Kol_5_uid67321/NC_015562.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Methanotorris_igneus_Kol_5_uid67321/NC_015562.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013922.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013922.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013922.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013923.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013923.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013923.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013924.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013924.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013924.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013925.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013925.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/NC_013925.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrialba_magadii_ATCC_43099_uid46245/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/NC_019962.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/NC_019962.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/NC_019962.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/NC_019963.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/NC_019963.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/NC_019963.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/NC_019967.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/NC_019967.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/NC_019967.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natrinema_pellirubrum_DSM_15624_uid74437/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronobacterium_gregoryi_SP2_uid74439/NC_019792.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronobacterium_gregoryi_SP2_uid74439/NC_019792.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronobacterium_gregoryi_SP2_uid74439/NC_019792.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/NC_019974.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/NC_019974.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/NC_019974.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/NC_019975.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/NC_019975.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/NC_019975.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/NC_019976.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/NC_019976.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/NC_019976.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronococcus_occultus_SP4_uid184863/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_moolapensis_8_8_11_uid190182/NC_020388.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_moolapensis_8_8_11_uid190182/NC_020388.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_moolapensis_8_8_11_uid190182/NC_020388.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/NC_007426.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/NC_007426.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/NC_007426.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/NC_007427.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/NC_007427.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/NC_007427.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/NC_007428.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/NC_007428.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/NC_007428.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Natronomonas_pharaonis_DSM_2160_uid58435/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Picrophilus_torridus_DSM_9790_uid58041/NC_005877.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Picrophilus_torridus_DSM_9790_uid58041/NC_005877.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Picrophilus_torridus_DSM_9790_uid58041/NC_005877.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_abyssi_GE5_uid62903/NC_000868.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_abyssi_GE5_uid62903/NC_000868.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_abyssi_GE5_uid62903/NC_000868.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_abyssi_GE5_uid62903/NC_001773.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_abyssi_GE5_uid62903/NC_001773.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_abyssi_GE5_uid62903/NC_001773.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_abyssi_GE5_uid62903/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_abyssi_GE5_uid62903/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_abyssi_GE5_uid62903/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_furiosus_COM1_uid169620/NC_018092.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_furiosus_COM1_uid169620/NC_018092.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_furiosus_COM1_uid169620/NC_018092.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_furiosus_DSM_3638_uid57873/NC_003413.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_furiosus_DSM_3638_uid57873/NC_003413.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_furiosus_DSM_3638_uid57873/NC_003413.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_horikoshii_OT3_uid57753/NC_000961.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_horikoshii_OT3_uid57753/NC_000961.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_horikoshii_OT3_uid57753/NC_000961.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_yayanosii_CH1_uid68281/NC_015680.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_yayanosii_CH1_uid68281/NC_015680.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Pyrococcus_yayanosii_CH1_uid68281/NC_015680.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/NC_014804.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/NC_014804.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/NC_014804.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/NC_015471.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/NC_015471.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/NC_015471.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_barophilus_MP_uid54733/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_gammatolerans_EJ3_uid59389/NC_012804.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_gammatolerans_EJ3_uid59389/NC_012804.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_gammatolerans_EJ3_uid59389/NC_012804.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_kodakarensis_KOD1_uid58225/NC_006624.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_kodakarensis_KOD1_uid58225/NC_006624.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_kodakarensis_KOD1_uid58225/NC_006624.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_litoralis_DSM_5473_uid82997/NC_022084.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_litoralis_DSM_5473_uid82997/NC_022084.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_litoralis_DSM_5473_uid82997/NC_022084.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_onnurineus_NA1_uid59043/NC_011529.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_onnurineus_NA1_uid59043/NC_011529.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_onnurineus_NA1_uid59043/NC_011529.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_sibiricus_MM_739_uid59399/NC_012883.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_sibiricus_MM_739_uid59399/NC_012883.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermococcus_sibiricus_MM_739_uid59399/NC_012883.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermoplasma_acidophilum_DSM_1728_uid61573/NC_002578.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermoplasma_acidophilum_DSM_1728_uid61573/NC_002578.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermoplasma_acidophilum_DSM_1728_uid61573/NC_002578.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermoplasma_volcanium_GSS1_uid57751/NC_002689.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermoplasma_volcanium_GSS1_uid57751/NC_002689.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermoplasma_volcanium_GSS1_uid57751/NC_002689.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermoplasmatales_archaeon_BRNA1_uid195930/NC_020892.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermoplasmatales_archaeon_BRNA1_uid195930/NC_020892.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/Thermoplasmatales_archaeon_BRNA1_uid195930/NC_020892.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/NC_015954.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/NC_015954.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/NC_015954.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/NC_015955.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/NC_015955.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/NC_015955.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/NC_015959.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/NC_015959.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/NC_015959.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/all.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/all.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Euryarchaeota/halophilic_archaeon_DL31_uid72619/all.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Korarchaeota/Candidatus_Korarchaeum_cryptofilum_OPF8_uid58601/NC_010482.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Korarchaeota/Candidatus_Korarchaeum_cryptofilum_OPF8_uid58601/NC_010482.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Korarchaeota/Candidatus_Korarchaeum_cryptofilum_OPF8_uid58601/NC_010482.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Lokiarchaeota/archeaon_Loki-ASM98684v1/GCA_000986845.1_ASM98684v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Lokiarchaeota/archeaon_Loki-ASM98684v1/GCA_000986845.1_ASM98684v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Lokiarchaeota/archeaon_Loki-ASM98684v1/GCA_000986845.1_ASM98684v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Nanoarchaeota/Nanoarchaeum_equitans_Kin4_M_uid58009/NC_005213.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Nanoarchaeota/Nanoarchaeum_equitans_Kin4_M_uid58009/NC_005213.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Nanoarchaeota/Nanoarchaeum_equitans_Kin4_M_uid58009/NC_005213.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Nanohaloarchaeota/Candidatus_Haloredivivus_sp._G17-ASM23619v1/GCA_000236195.2_ASM23619v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Nanohaloarchaeota/Candidatus_Haloredivivus_sp._G17-ASM23619v1/GCA_000236195.2_ASM23619v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Nanohaloarchaeota/Candidatus_Haloredivivus_sp._G17-ASM23619v1/GCA_000236195.2_ASM23619v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Caldiarchaeum_subterraneum-ASM27032v1/GCA_000270325.1_ASM27032v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Caldiarchaeum_subterraneum-ASM27032v1/GCA_000270325.1_ASM27032v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Caldiarchaeum_subterraneum-ASM27032v1/GCA_000270325.1_ASM27032v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Caldiarchaeum_subterraneum_uid227223/NC_022786.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Caldiarchaeum_subterraneum_uid227223/NC_022786.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Caldiarchaeum_subterraneum_uid227223/NC_022786.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosoarchaeum_koreensis_MY1-ASM22017v1/GCA_000220175.2_ASM22017v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosoarchaeum_koreensis_MY1-ASM22017v1/GCA_000220175.2_ASM22017v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosoarchaeum_koreensis_MY1-ASM22017v1/GCA_000220175.2_ASM22017v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosoarchaeum_limnia_BG20-ASM24114v2/GCA_000241145.2_ASM24114v2_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosoarchaeum_limnia_BG20-ASM24114v2/GCA_000241145.2_ASM24114v2_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosoarchaeum_limnia_BG20-ASM24114v2/GCA_000241145.2_ASM24114v2_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosoarchaeum_limnia_SFB1-ASM20458v1/GCA_000204585.1_ASM20458v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosoarchaeum_limnia_SFB1-ASM20458v1/GCA_000204585.1_ASM20458v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosoarchaeum_limnia_SFB1-ASM20458v1/GCA_000204585.1_ASM20458v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopelagicus_brevis-ASM81218v1/GCA_000812185.1_ASM81218v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopelagicus_brevis-ASM81218v1/GCA_000812185.1_ASM81218v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopelagicus_brevis-ASM81218v1/GCA_000812185.1_ASM81218v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_AR2_uid176130/NC_018656.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_AR2_uid176130/NC_018656.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_AR2_uid176130/NC_018656.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_koreensis_AR1-ASM29936v1/GCA_000299365.1_ASM29936v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_koreensis_AR1-ASM29936v1/GCA_000299365.1_ASM29936v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_koreensis_AR1-ASM29936v1/GCA_000299365.1_ASM29936v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_koreensis_AR1_uid176129/NC_018655.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_koreensis_AR1_uid176129/NC_018655.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_koreensis_AR1_uid176129/NC_018655.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_salaria_BD31-ASM24287v3/GCA_000242875.3_ASM24287v3_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_salaria_BD31-ASM24287v3/GCA_000242875.3_ASM24287v3_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_salaria_BD31-ASM24287v3/GCA_000242875.3_ASM24287v3_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_sp._D3C-ASM87577v1/GCA_000875775.1_ASM87577v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_sp._D3C-ASM87577v1/GCA_000875775.1_ASM87577v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_sp._D3C-ASM87577v1/GCA_000875775.1_ASM87577v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_sp._NF5-ASM95617v1/GCA_000956175.1_ASM95617v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_sp._NF5-ASM95617v1/GCA_000956175.1_ASM95617v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrosopumilus_sp._NF5-ASM95617v1/GCA_000956175.1_ASM95617v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrososphaera_evergladensis_SR1-ASM73028v1/GCA_000730285.1_ASM73028v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrososphaera_evergladensis_SR1-ASM73028v1/GCA_000730285.1_ASM73028v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrososphaera_evergladensis_SR1-ASM73028v1/GCA_000730285.1_ASM73028v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrososphaera_gargensis_Ga9_2_uid176707/NC_018719.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrososphaera_gargensis_Ga9_2_uid176707/NC_018719.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Candidatus_Nitrososphaera_gargensis_Ga9_2_uid176707/NC_018719.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Cenarchaeum_symbiosum_A-ASM20071v1/GCA_000200715.1_ASM20071v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Cenarchaeum_symbiosum_A-ASM20071v1/GCA_000200715.1_ASM20071v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Cenarchaeum_symbiosum_A-ASM20071v1/GCA_000200715.1_ASM20071v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Cenarchaeum_symbiosum_A_uid61411/NC_014820.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Cenarchaeum_symbiosum_A_uid61411/NC_014820.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Cenarchaeum_symbiosum_A_uid61411/NC_014820.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-B03-ASM74678v1/GCA_000746785.1_ASM74678v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-B03-ASM74678v1/GCA_000746785.1_ASM74678v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-B03-ASM74678v1/GCA_000746785.1_ASM74678v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-D07-ASM74669v1/GCA_000746695.1_ASM74669v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-D07-ASM74669v1/GCA_000746695.1_ASM74669v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-D07-ASM74669v1/GCA_000746695.1_ASM74669v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-D11-ASM74676v1/GCA_000746765.1_ASM74676v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-D11-ASM74676v1/GCA_000746765.1_ASM74676v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-D11-ASM74676v1/GCA_000746765.1_ASM74676v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-E16-ASM72414v1/GCA_000724145.1_ASM72414v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-E16-ASM72414v1/GCA_000724145.1_ASM72414v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-E16-ASM72414v1/GCA_000724145.1_ASM72414v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-N04-ASM72291v1/GCA_000722915.1_ASM72291v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-N04-ASM72291v1/GCA_000722915.1_ASM72291v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-N04-ASM72291v1/GCA_000722915.1_ASM72291v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-O18-ASM74670v1/GCA_000746705.1_ASM74670v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-O18-ASM74670v1/GCA_000746705.1_ASM74670v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-O18-ASM74670v1/GCA_000746705.1_ASM74670v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-P11-ASM74668v1/GCA_000746685.1_ASM74668v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-P11-ASM74668v1/GCA_000746685.1_ASM74668v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_AAA799-P11-ASM74668v1/GCA_000746685.1_ASM74668v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_RSA3-ASM74674v1/GCA_000746745.1_ASM74674v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_RSA3-ASM74674v1/GCA_000746745.1_ASM74674v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Marine_Group_I_thaumarchaeote_SCGC_RSA3-ASM74674v1/GCA_000746745.1_ASM74674v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Nitrosopumilus_maritimus_SCM1-ASM1846v1/GCA_000018465.1_ASM1846v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Nitrosopumilus_maritimus_SCM1-ASM1846v1/GCA_000018465.1_ASM1846v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Nitrosopumilus_maritimus_SCM1-ASM1846v1/GCA_000018465.1_ASM1846v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Nitrosopumilus_maritimus_SCM1_uid58903/NC_010085.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Nitrosopumilus_maritimus_SCM1_uid58903/NC_010085.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Nitrosopumilus_maritimus_SCM1_uid58903/NC_010085.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Nitrososphaera_viennensis_EN76-ASM69878v1/GCA_000698785.1_ASM69878v1_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Nitrososphaera_viennensis_EN76-ASM69878v1/GCA_000698785.1_ASM69878v1_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Nitrososphaera_viennensis_EN76-ASM69878v1/GCA_000698785.1_ASM69878v1_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Thaumarchaeota_archaeon_N4-APF_1883_PRJEB4650/GCA_000723185.1_APF_1883_PRJEB4650_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Thaumarchaeota_archaeon_N4-APF_1883_PRJEB4650/GCA_000723185.1_APF_1883_PRJEB4650_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Thaumarchaeota_archaeon_N4-APF_1883_PRJEB4650/GCA_000723185.1_APF_1883_PRJEB4650_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Thaumarchaeota_archaeon_SAT1-ASM95590v2/GCA_000955905.2_ASM95590v2_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Thaumarchaeota_archaeon_SAT1-ASM95590v2/GCA_000955905.2_ASM95590v2_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Thaumarchaeota_archaeon_SAT1-ASM95590v2/GCA_000955905.2_ASM95590v2_protein.faa
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-08-30-CBP; module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Thaumarchaeota_archaeon_SCGC_AB-539-E09-GATC/GCA_000349625.1_GATC_protein.PFam-27-A --tblout /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Thaumarchaeota_archaeon_SCGC_AB-539-E09-GATC/GCA_000349625.1_GATC_protein.hmmscan.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Archaea/Thaumarchaeota/Thaumarchaeota_archaeon_SCGC_AB-539-E09-GATC/GCA_000349625.1_GATC_protein.faa