# 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_bouchesdurhonensis.result/NZ_LT7070091.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070091.0.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 (9316 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] 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_bouchesdurhonensis.result/NZ_LT7070091.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070091.0.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 (9316 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_bouchesdurhonensis.result/NZ_LT7070091.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070091.0.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 (9316 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_bouchesdurhonensis.result/NZ_LT7070091.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070091.0.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 (9316 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_bouchesdurhonensis.result/NZ_LT7070091.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070091.0.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 (9316 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_bouchesdurhonensis.result/NZ_LT7070091.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070091.0.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 (9316 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: 156.51 // [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/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070091.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070091.0.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 (9316 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: 327.92 // [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_bouchesdurhonensis.result/NZ_LT7070091.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070091.0.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 (9316 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_bouchesdurhonensis.result/NZ_LT7070141.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.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 (7456 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/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.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 (7456 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_bouchesdurhonensis.result/NZ_LT7070141.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.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 (7456 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/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.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 (7456 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_bouchesdurhonensis.result/NZ_LT7070141.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.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 (7456 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_bouchesdurhonensis.result/NZ_LT7070141.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.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 (7456 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 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_bouchesdurhonensis.result/NZ_LT7070141.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.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 (7456 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: 313.90 // [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/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070141.1.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 (7456 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: 94.69 // [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_bouchesdurhonensis.result/NZ_LT7070081.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070081.2.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 (6016 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_bouchesdurhonensis.result/NZ_LT7070081.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070081.2.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 (6016 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_bouchesdurhonensis.result/NZ_LT7070081.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070081.2.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 (6016 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/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070081.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070081.2.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 (6016 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_bouchesdurhonensis.result/NZ_LT7070081.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070081.2.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 (6016 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_bouchesdurhonensis.result/NZ_LT7070081.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070081.2.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 (6016 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: 63.17 // [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_bouchesdurhonensis.result/NZ_LT7070081.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070081.2.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 (6016 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_bouchesdurhonensis.result/NZ_LT7070081.2.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070081.2.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 (6016 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: 211.76 // [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_bouchesdurhonensis.result/NZ_LT7070121.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070121.3.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 (9028 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: 140.84 // [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_bouchesdurhonensis.result/NZ_LT7070121.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070121.3.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 (9028 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_bouchesdurhonensis.result/NZ_LT7070121.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070121.3.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 (9028 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_bouchesdurhonensis.result/NZ_LT7070121.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070121.3.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 (9028 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_bouchesdurhonensis.result/NZ_LT7070121.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070121.3.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 (9028 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/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070121.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070121.3.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 (9028 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: 114.66 // [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/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070121.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070121.3.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 (9028 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: 151.67 // [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_bouchesdurhonensis.result/NZ_LT7070121.3.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070121.3.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 (9028 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/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.3e-05 11.7 0.0 4.4e-05 10.8 0.0 1.4 0 frame_1 Domain annotation for each sequence: >> frame_1 [No individual domains that satisfy reporting thresholds (although complete target did)] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (10527818 residues searched) Passed MSV filter: 3 (0.5); expected 0.1 (0.02) Passed bias filter: 3 (0.5); 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: 4.62u 0.08s 00:00:04.70 Elapsed: 00:00:03.42 # Mc/sec: 1083.56 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (10527818 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: 0.16u 0.02s 00:00:00.18 Elapsed: 00:00:00.12 # Mc/sec: 9211.84 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.8e-31 98.1 10.3 1.8e-31 98.1 10.3 11.0 1 frame_3 Domain annotation for each sequence: >> frame_3 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 98.1 10.3 2.9e-32 1.8e-31 2 155 .. 414173 414350 .. 414172 414351 .. 0.91 Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (156 nodes) Target sequences: 6 (10527818 residues searched) Passed MSV filter: 3 (0.5); 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: 1.71u 0.06s 00:00:01.77 Elapsed: 00:00:01.47 # Mc/sec: 1117.24 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2e-68 218.4 0.1 3.9e-31 97.1 0.0 4.0 3 frame_5 7.1e-46 145.0 0.0 5.8e-29 90.0 0.0 2.4 2 frame_3 8.4e-32 99.3 0.0 1.3e-31 98.7 0.0 1.3 1 frame_4 4.9e-30 93.5 0.0 2.9e-17 51.9 0.0 2.3 2 frame_6 3.7e-16 48.3 0.5 8.5e-16 47.2 0.5 1.6 1 frame_1 Domain annotation for each sequence: >> frame_5 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 51.5 0.0 3.4e-17 4.1e-17 2 168 .] 507690 507827 .. 507689 507827 .. 0.85 2 ! 64.2 0.0 4.2e-21 5e-21 2 168 .] 514317 514483 .. 514316 514483 .. 0.95 3 ! 97.1 0.0 3.3e-31 3.9e-31 1 167 [. 725950 726107 .. 725950 726108 .. 0.92 >> frame_3 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 52.7 0.0 1.4e-17 1.7e-17 1 168 [] 626130 626274 .. 626130 626274 .. 0.94 2 ! 90.0 0.0 4.9e-29 5.8e-29 2 168 .] 730834 730982 .. 730833 730982 .. 0.84 >> frame_4 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 98.7 0.0 1.1e-31 1.3e-31 3 167 .. 818292 818501 .. 818290 818502 .. 0.94 >> frame_6 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 39.4 0.0 1.8e-13 2.2e-13 2 168 .] 305792 305946 .. 305791 305946 .. 0.91 2 ! 51.9 0.0 2.4e-17 2.9e-17 2 167 .. 1708239 1708407 .. 1708238 1708408 .. 0.95 >> frame_1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 47.2 0.5 7.1e-16 8.5e-16 1 168 [] 585578 585722 .. 585578 585722 .. 0.86 Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (10527818 residues searched) Passed MSV filter: 5 (0.833333); expected 0.1 (0.02) Passed bias filter: 5 (0.833333); expected 0.1 (0.02) Passed Vit filter: 5 (0.833333); expected 0.0 (0.001) Passed Fwd filter: 5 (0.833333); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 5 [number of targets reported over threshold] # CPU time: 8.24u 0.21s 00:00:08.45 Elapsed: 00:00:01.81 # Mc/sec: 977.17 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (10527818 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: 0.10u 0.02s 00:00:00.12 Elapsed: 00:00:00.10 # Mc/sec: 2737.23 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (10527818 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: 0.15u 0.02s 00:00:00.17 Elapsed: 00:00:00.10 # Mc/sec: 13370.33 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (10527818 residues searched) Passed MSV filter: 3 (0.5); 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: 2.06u 0.05s 00:00:02.11 Elapsed: 00:00:01.72 # Mc/sec: 2576.87 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (10527818 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: 0.11u 0.03s 00:00:00.14 Elapsed: 00:00:00.11 # Mc/sec: 3828.30 // [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/httB.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.httB.domtblout # show alignments in output: no # domain reporting threshold: score >= 25 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: httB [M=35] 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 (35 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (41250 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: 1328.25 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (41250 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: 1188.00 // [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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (41250 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (41004 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: 1320.33 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (41004 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: 1180.92 // [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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (41004 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: 1320.33 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40938 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: 1318.20 // [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/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40938 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40938 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40818 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: 1314.34 // [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/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40818 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: 1175.56 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40818 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: 1314.34 // [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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40920 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: 1317.62 // [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/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40920 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40920 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40992 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/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40992 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: 1180.57 // [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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40992 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1315.69 // [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/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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: 0.00u 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 0.00s 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 0.00s 00:00:00.00 Elapsed: 00:00:00.01 # Mc/sec: 1315.69 // [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/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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: 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 0.00s 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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40884 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/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40884 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: 1177.46 // [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_bouchesdurhonensis.result/NZ_LT7070061.4.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070061.4.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 (40884 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: 1316.46 // [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/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.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 (7592 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_bouchesdurhonensis.result/NZ_LT7070161.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.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 (7592 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: 96.42 // [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_bouchesdurhonensis.result/NZ_LT7070161.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.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 (7592 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_bouchesdurhonensis.result/NZ_LT7070161.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.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 (7592 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: 118.44 // [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_bouchesdurhonensis.result/NZ_LT7070161.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.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 (7592 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_bouchesdurhonensis.result/NZ_LT7070161.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.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 (7592 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: 19.74 // [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/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.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 (7592 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/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Bacteroidaceae//Bacteroides_bouchesdurhonensis.result/NZ_LT7070161.5.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 (7592 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]