# hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (3329534 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.04u 0.01s 00:00:00.05 Elapsed: 00:00:00.05 # Mc/sec: 2663.63 // [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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (3329534 residues searched) Passed MSV filter: 1 (0.166667); expected 0.1 (0.02) Passed bias filter: 1 (0.166667); expected 0.1 (0.02) Passed Vit filter: 1 (0.166667); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.13u 0.01s 00:00:00.14 Elapsed: 00:00:00.12 # Mc/sec: 721.40 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (3329534 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.05u 0.01s 00:00:00.06 Elapsed: 00:00:00.04 # Mc/sec: 8740.03 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (3329534 residues searched) Passed MSV filter: 3 (0.5); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.17u 0.02s 00:00:00.19 Elapsed: 00:00:00.10 # Mc/sec: 5194.07 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF00881.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.1e-44 140.3 0.0 1.3e-26 82.3 0.0 2.3 2 frame_5 9.3e-20 60.1 0.4 7.1e-19 57.2 0.4 2.1 1 frame_6 4.3e-18 54.6 0.0 7.3e-18 53.9 0.0 1.3 1 frame_2 Domain annotation for each sequence: >> frame_5 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 55.8 0.0 9.7e-19 1.9e-18 2 168 .] 44511 44676 .. 44510 44676 .. 0.83 2 ! 82.3 0.0 6.7e-27 1.3e-26 2 168 .] 184813 184963 .. 184812 184963 .. 0.84 >> frame_6 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 57.2 0.4 3.6e-19 7.1e-19 3 168 .] 349836 349978 .. 349835 349978 .. 0.89 >> frame_2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 53.9 0.0 3.6e-18 7.3e-18 4 167 .. 109834 109997 .. 109832 109998 .. 0.84 Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (168 nodes) Target sequences: 6 (3329534 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: 3 (0.5); expected 0.0 (0.001) Passed Fwd filter: 3 (0.5); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 3 [number of targets reported over threshold] # CPU time: 1.39u 0.03s 00:00:01.42 Elapsed: 00:00:00.95 # Mc/sec: 588.80 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (3329534 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.06u 0.01s 00:00:00.06 Elapsed: 00:00:00.04 # Mc/sec: 10571.27 // [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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (3329534 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: 0.18u 0.01s 00:00:00.19 Elapsed: 00:00:00.13 # Mc/sec: 10782.57 // [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/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (3329534 residues searched) Passed MSV filter: 2 (0.333333); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.18u 0.01s 00:00:00.19 Elapsed: 00:00:00.10 # Mc/sec: 11719.96 // [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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40848 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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: 1315.31 // [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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40848 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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: 1315.31 // [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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40848 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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: 1176.42 // [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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40974 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40974 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.00u 0.01s 00:00:00.01 Elapsed: 00:00:00.00 # Mc/sec: inf // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF14028.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40974 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40896 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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: 1316.85 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02624.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40896 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40896 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40986 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40986 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.tmp_proteins.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000021.0.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 (40986 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-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: 1180.40 // [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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.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 (2319890 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.09u 0.00s 00:00:00.09 Elapsed: 00:00:00.05 # Mc/sec: 19533.47 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF02794.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.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 (2319890 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.04u 0.01s 00:00:00.05 Elapsed: 00:00:00.04 # Mc/sec: 7365.65 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF05147.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.7e-07 18.1 3.7 4.4e-07 17.4 3.7 1.2 0 frame_2 Domain annotation for each sequence: >> frame_2 [No individual domains that satisfy reporting thresholds (although complete target did)] Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (352 nodes) Target sequences: 6 (2319890 residues searched) Passed MSV filter: 2 (0.333333); expected 0.1 (0.02) Passed bias filter: 1 (0.166667); expected 0.1 (0.02) Passed Vit filter: 1 (0.166667); expected 0.0 (0.001) Passed Fwd filter: 1 (0.166667); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 1 [number of targets reported over threshold] # CPU time: 0.79u 0.03s 00:00:00.82 Elapsed: 00:00:00.78 # Mc/sec: 1046.92 // [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/CyaG.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.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 (2319890 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.04u 0.01s 00:00:00.05 Elapsed: 00:00:00.03 # Mc/sec: 8119.61 // [ok] # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/labKC.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.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 (2319890 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.02u 0.01s 00:00:00.03 Elapsed: 00:00:00.03 # Mc/sec: 3093.19 // [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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.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 (2319890 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.02u 0.01s 00:00:00.03 Elapsed: 00:00:00.02 # Mc/sec: 3015.86 // [ok] Incorrect number of command line arguments. Usage: hmmsearch [options] where most common options are: -h : show brief help on version and usage To see more help on available options, do /data/pg-molgen/software/bagel4/tools/hmmsearch/binaries/hmmsearch -h # hmmsearch :: search profile(s) against a sequence database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query HMM file: /data/pg-molgen/software/bagel4_2022/db_hmm/PF01944.hmm # target sequence database: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.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 (2319890 residues searched) Passed MSV filter: 2 (0.333333); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.07u 0.01s 00:00:00.08 Elapsed: 00:00:00.07 # Mc/sec: 5170.04 // [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_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.six_frames.fna # per-dom hits tabular output: /data/pg-molgen/USERS/Vicky/Results_BAGEL4_Peregrine/Results_Porphyromonadaceae/Lascolabacillus_massiliensis.result/NZ_CTEJ010000011.1.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 (2319890 residues searched) Passed MSV filter: 0 (0); expected 0.1 (0.02) Passed bias filter: 0 (0); expected 0.1 (0.02) Passed Vit filter: 0 (0); expected 0.0 (0.001) Passed Fwd filter: 0 (0); expected 0.0 (1e-05) Initial search space (Z): 6 [actual number of targets] Domain search space (domZ): 0 [number of targets reported over threshold] # CPU time: 0.06u 0.00s 00:00:00.06 Elapsed: 00:00:00.04 # Mc/sec: 9743.54 // [ok]