# hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (2228522 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.03u 0.01s 00:00:00.04 Elapsed: 00:00:00.03 # Mc/sec: 2971.36 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (2228522 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.04u 0.01s 00:00:00.05 Elapsed: 00:00:00.03 # Mc/sec: 12479.72 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (2228522 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.02u 0.01s 00:00:00.03 Elapsed: 00:00:00.02 # Mc/sec: 2897.08 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (2228522 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.03u 0.01s 00:00:00.04 Elapsed: 00:00:00.03 # Mc/sec: 9434.08 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (2228522 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.07u 0.01s 00:00:00.08 Elapsed: 00:00:00.05 # Mc/sec: 18764.16 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (2228522 residues searched) Passed MSV filter: 2 (0.333333); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.08u 0.02s 00:00:00.10 Elapsed: 00:00:00.08 # Mc/sec: 4345.62 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (2228522 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.03u 0.00s 00:00:00.03 Elapsed: 00:00:00.03 # Mc/sec: 7799.83 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000011.0.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (2228522 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.09u 0.01s 00:00:00.10 Elapsed: 00:00:00.07 # Mc/sec: 11206.28 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (83360 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (83360 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1058.67 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (83360 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (83360 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (83360 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 2934.27 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (83360 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (83360 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 3509.46 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000211.9.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (83360 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.2e-21 65.3 1.1 4.7e-19 57.8 1.1 2.2 1 frame_5 Domain annotation for each sequence: >> frame_5 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 57.8 1.1 7.9e-20 4.7e-19 1 168 [] 6101 6245 .. 6101 6245 .. 0.87 Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (68152 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 1 (0.166667); expected 0.1 (0.02) Passed Vit filter: 1 (0.166667); expected 0.0 (0.001) Passed Fwd filter: 1 (0.166667); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 1 [number of targets reported over threshold] # CPU time: 0.03u 0.01s 00:00:00.04 Elapsed: 00:00:00.04 # Mc/sec: 286.24 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (68152 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 865.53 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (68152 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (68152 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 177.20 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (68152 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 272.61 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (68152 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 2869.20 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (68152 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 2398.95 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (68152 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.PF02624.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: YcaO [M=322] Accession: PF02624.18 Description: YcaO cyclodehydratase, ATP-ad Mg2+-binding Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (322 nodes) Target sequences: 6 (40860 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.PF02624.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: YcaO [M=322] Accession: PF02624.18 Description: YcaO cyclodehydratase, ATP-ad Mg2+-binding Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (322 nodes) Target sequences: 6 (40860 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000241.10.PF14028.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Lant_dehydr_C [M=288] Accession: PF14028.8 Description: Lantibiotic biosynthesis dehydratase C-term Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (288 nodes) Target sequences: 6 (40860 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (99798 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1267.43 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (99798 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (99798 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (99798 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (99798 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (99798 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1556.85 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (99798 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000181.11.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (99798 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (25234 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 393.65 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (25234 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 320.47 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (25234 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (25234 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (25234 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (25234 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (25234 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000261.12.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (25234 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (238060 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 3713.74 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (238060 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 3023.36 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (238060 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (238060 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.02 # Mc/sec: 5011.16 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (238060 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 3999.41 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (238060 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (238060 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 8379.71 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000101.13.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (238060 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (134520 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 5663.29 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (134520 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (134520 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (134520 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 349.75 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (134520 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1412.46 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (134520 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 538.08 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (134520 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 4735.10 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000141.14.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (134520 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1708.40 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (81146 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 852.03 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (81146 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (81146 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 2856.34 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (81146 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 210.98 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (81146 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (81146 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1030.55 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (81146 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 3.8e-33 103.6 0.0 5.5e-33 103.1 0.0 1.2 1 frame_6 1.7e-05 13.6 0.0 0.0022 6.8 0.0 2.9 0 frame_5 Domain annotation for each sequence: >> frame_6 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 103.1 0.0 1.8e-33 5.5e-33 1 168 [] 10135 10293 .. 10135 10293 .. 0.94 >> frame_5 [No individual domains that satisfy reporting thresholds (although complete target did)] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (81146 residues searched) Passed MSV filter: 2 (0.333333); expected 0.1 (0.02) Passed bias filter: 2 (0.333333); expected 0.1 (0.02) Passed Vit filter: 2 (0.333333); expected 0.0 (0.001) Passed Fwd filter: 2 (0.333333); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.04u 0.01s 00:00:00.05 Elapsed: 00:00:00.04 # Mc/sec: 340.81 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.PF02624.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: YcaO [M=322] Accession: PF02624.18 Description: YcaO cyclodehydratase, ATP-ad Mg2+-binding Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (322 nodes) Target sequences: 6 (40334 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 1298.75 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.PF02624.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: YcaO [M=322] Accession: PF02624.18 Description: YcaO cyclodehydratase, ATP-ad Mg2+-binding Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (322 nodes) Target sequences: 6 (40334 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1298.75 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000221.15.PF14028.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Lant_dehydr_C [M=288] Accession: PF14028.8 Description: Lantibiotic biosynthesis dehydratase C-term Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (288 nodes) Target sequences: 6 (40334 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (257686 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 1 (0.166667); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.03u 0.00s 00:00:00.03 Elapsed: 00:00:00.03 # Mc/sec: 3023.52 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (257686 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 10848.58 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (257686 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 4019.90 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (257686 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (257686 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (257686 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (257686 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 4329.12 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000071.16.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (257686 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 2705.70 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.4e-15 45.7 0.0 4.6e-15 44.8 0.0 1.5 1 frame_5 Domain annotation for each sequence: >> frame_5 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 44.8 0.0 7.7e-16 4.6e-15 1 168 [] 30228 30383 .. 30228 30383 .. 0.89 Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (357188 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 1 (0.166667); expected 0.1 (0.02) Passed Vit filter: 1 (0.166667); expected 0.0 (0.001) Passed Fwd filter: 1 (0.166667); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 1 [number of targets reported over threshold] # CPU time: 0.10u 0.00s 00:00:00.10 Elapsed: 00:00:00.10 # Mc/sec: 600.08 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (357188 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (357188 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 1 (0.166667); expected 0.1 (0.02) Passed Vit filter: 1 (0.166667); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.11u 0.01s 00:00:00.12 Elapsed: 00:00:00.11 # Mc/sec: 1367.06 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (357188 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (357188 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 12573.02 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (357188 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 5572.13 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (357188 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (357188 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 4536.29 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.PF02624.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: YcaO [M=322] Accession: PF02624.18 Description: YcaO cyclodehydratase, ATP-ad Mg2+-binding Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (322 nodes) Target sequences: 6 (40926 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 1317.82 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.PF02624.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: YcaO [M=322] Accession: PF02624.18 Description: YcaO cyclodehydratase, ATP-ad Mg2+-binding Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (322 nodes) Target sequences: 6 (40926 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000061.17.PF14028.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Lant_dehydr_C [M=288] Accession: PF14028.8 Description: Lantibiotic biosynthesis dehydratase C-term Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (288 nodes) Target sequences: 6 (40926 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 1178.67 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (87926 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (87926 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 3701.68 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (87926 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (87926 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 1116.66 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (87926 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 228.61 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (87926 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (87926 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1371.65 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000201.18.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (87926 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (30362 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (30362 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (30362 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (30362 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (30362 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (30362 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (30362 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000251.1.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (30362 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 318.80 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (22242 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (22242 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (22242 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (22242 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (22242 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (22242 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (22242 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000271.19.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (22242 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (253056 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 3947.67 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (253056 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 2657.09 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (253056 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (253056 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (253056 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 8907.57 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (253056 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 10653.66 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (253056 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 4251.34 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000081.20.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (253056 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (108378 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (108378 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (108378 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (108378 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (108378 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 1690.70 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (108378 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (108378 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 1 (0.166667); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000161.21.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (108378 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (407040 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.02 # Mc/sec: 7163.90 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (407040 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.02 # Mc/sec: 3174.91 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (407040 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 4273.92 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (407040 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 6838.27 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (407040 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1628.16 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (407040 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1058.30 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (407040 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 17136.38 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000041.22.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (407040 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (93338 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (93338 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (93338 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 373.35 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (93338 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (93338 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (93338 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (93338 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000191.23.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (93338 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (102998 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 267.79 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (102998 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (102998 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 4336.22 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (102998 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (102998 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (102998 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (102998 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 1308.07 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000171.24.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (102998 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (1336870 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.08u 0.01s 00:00:00.09 Elapsed: 00:00:00.08 # Mc/sec: 7035.28 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (1336870 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.02u 0.01s 00:00:00.03 Elapsed: 00:00:00.02 # Mc/sec: 2673.74 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 3.5e-24 74.5 0.0 5.7e-24 73.8 0.0 1.3 1 frame_1 Domain annotation for each sequence: >> frame_1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 73.8 0.0 9.5e-25 5.7e-24 2 168 .] 79342 79519 .. 79341 79519 .. 0.94 Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (1336870 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 1 (0.166667); expected 0.1 (0.02) Passed Vit filter: 1 (0.166667); expected 0.0 (0.001) Passed Fwd filter: 1 (0.166667); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 1 [number of targets reported over threshold] # CPU time: 0.26u 0.01s 00:00:00.27 Elapsed: 00:00:00.26 # Mc/sec: 863.82 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (1336870 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.03u 0.01s 00:00:00.04 Elapsed: 00:00:00.03 # Mc/sec: 6951.72 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (1336870 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 3475.86 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (1336870 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.02 # Mc/sec: 7018.57 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (1336870 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.02 # Mc/sec: 8489.12 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (1336870 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.04u 0.01s 00:00:00.05 Elapsed: 00:00:00.04 # Mc/sec: 11764.46 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.PF02624.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: YcaO [M=322] Accession: PF02624.18 Description: YcaO cyclodehydratase, ATP-ad Mg2+-binding Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (322 nodes) Target sequences: 6 (41058 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 1322.07 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.PF02624.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: YcaO [M=322] Accession: PF02624.18 Description: YcaO cyclodehydratase, ATP-ad Mg2+-binding Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (322 nodes) Target sequences: 6 (41058 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866271.25.PF14028.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Lant_dehydr_C [M=288] Accession: PF14028.8 Description: Lantibiotic biosynthesis dehydratase C-term Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (288 nodes) Target sequences: 6 (41058 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (79986 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 2815.51 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (79986 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (79986 residues searched) Passed MSV filter: 2 (0.333333); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1247.78 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (79986 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (79986 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 839.85 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (79986 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (79986 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 3367.41 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000231.2.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (79986 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (200382 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 8436.08 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (200382 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 7053.45 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (200382 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (200382 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (200382 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (200382 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 3366.42 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (200382 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_KE3866281.3.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (200382 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (384218 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 1536.87 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (384218 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 16175.58 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (384218 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 4879.57 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (384218 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (384218 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 13524.47 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (384218 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 6454.86 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (384218 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.02 # Mc/sec: 2996.90 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000051.4.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (384218 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (119606 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1255.86 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (119606 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 5035.41 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (119606 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 2009.38 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (119606 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1865.85 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (119606 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 4210.13 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (119606 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (119606 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000151.5.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (119606 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1519.00 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (247912 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 8726.50 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (247912 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (247912 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 3148.48 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (247912 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (247912 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 4164.92 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (247912 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 1 (0.166667); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 991.65 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (247912 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 3867.43 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000091.6.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (247912 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 10437.10 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (10856 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (10856 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (10856 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (10856 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 137.87 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (10856 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (10856 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (10856 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000281.7.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (10856 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.PF02794.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: HlyC [M=127] Accession: PF02794.18 Description: RTX toxin acyltransferase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (127 nodes) Target sequences: 6 (183204 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 2326.69 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.labKC.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: labKC [M=40] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (40 nodes) Target sequences: 6 (183204 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/TIGR04195.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.TIGR04195.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: TIGR04195 [M=421] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (421 nodes) Target sequences: 6 (183204 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 7712.89 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.PF01944.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoIIM [M=156] Accession: PF01944.19 Description: Stage II sporulation protein M Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (183204 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/LinL.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.LinL.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LinL [M=26] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (26 nodes) Target sequences: 6 (183204 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 476.33 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.CyaG.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: CyaG [M=105] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (105 nodes) Target sequences: 6 (183204 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.PF05147.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: LANC_like [M=352] Accession: PF05147.15 Description: Lanthionine synthetase C-like protein Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (183204 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.01 # Mc/sec: 6448.78 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_graminisolvens.result/NZ_ATZI010000131.8.PF00881.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Nitroreductase [M=168] Accession: PF00881.26 Description: Nitroreductase family Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- [No hits detected that satisfy reporting thresholds] Domain annotation for each sequence: [No targets detected that satisfy reporting thresholds] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (183204 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.01u 0.01s 00:00:00.02 Elapsed: 00:00:00.01 # Mc/sec: 3077.83 // [ok]