# hmmscan :: search sequence(s) against a profile database
# HMMER 3.2.1 (June 2018); http://hmmer.org/
# Copyright (C) 2018 Howard Hughes Medical Institute.
# Freely distributed under the BSD open source license.
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
# query sequence file:             seqs/all.faa
# target HMM database:             /tmp/pytest-of-hennings/pytest-0/test_full_analysis_and_file_pr0/test_dbs/pfams/31/processed/Pfam-A.hmm.unzipped_hmmlib-latest
# output directed to file:         tasks/fun_annot_by_hmmer-latest_on_pfams.v31.task5.log
# per-seq hits tabular output:     tasks/fun_annot_by_hmmer-latest_on_pfams.v31.task5.result
# show alignments in output:       no
# max ASCII text line length:      unlimited
# profile reporting threshold:     E-value <= 0.01
# number of worker threads:        3
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query:       WP_003131952.1  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      7e-31   95.8   0.2    9.7e-31   95.3   0.2    1.2  1  Ribosomal_S18  Ribosomal protein S18


Domain annotation for each model:
>> Ribosomal_S18  Ribosomal protein S18
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.3   0.2   9.7e-32   9.7e-31       1      52 []      22      73 ..      22      73 .. 0.98



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         1  (0.1); expected 0.2 (0.02)
Passed bias filter:                        1  (0.1); expected 0.2 (0.02)
Passed Vit filter:                         1  (0.1); expected 0.0 (0.001)
Passed Fwd filter:                         1  (0.1); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00
# Mc/sec: 172.14
//
Query:       NP_268346.1  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      7e-31   95.8   0.2    9.7e-31   95.3   0.2    1.2  1  Ribosomal_S18  Ribosomal protein S18


Domain annotation for each model:
>> Ribosomal_S18  Ribosomal protein S18
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.3   0.2   9.7e-32   9.7e-31       1      52 []      22      73 ..      22      73 .. 0.98



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         1  (0.1); expected 0.2 (0.02)
Passed bias filter:                        1  (0.1); expected 0.2 (0.02)
Passed Vit filter:                         1  (0.1); expected 0.0 (0.001)
Passed Fwd filter:                         1  (0.1); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00
# Mc/sec: 204.06
//
Query:       KZK33282.1  [L=81]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
      7e-31   95.8   0.2    9.7e-31   95.3   0.2    1.2  1  Ribosomal_S18  Ribosomal protein S18


Domain annotation for each model:
>> Ribosomal_S18  Ribosomal protein S18
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   95.3   0.2   9.7e-32   9.7e-31       1      52 []      22      73 ..      22      73 .. 0.98



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (81 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         1  (0.1); expected 0.2 (0.02)
Passed bias filter:                        1  (0.1); expected 0.2 (0.02)
Passed Vit filter:                         1  (0.1); expected 0.0 (0.001)
Passed Fwd filter:                         1  (0.1); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00
# Mc/sec: 245.66
//
Query:       WP_000665196.1  [L=162]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    7.4e-41  129.2   6.2    8.4e-41  129.1   6.2    1.0  1  DUF4381   Domain of unknown function (DUF4381)


Domain annotation for each model:
>> DUF4381  Domain of unknown function (DUF4381)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  129.1   6.2   8.4e-42   8.4e-41       2     145 ..      10     146 ..       9     147 .. 0.95



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (162 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         1  (0.1); expected 0.2 (0.02)
Passed bias filter:                        1  (0.1); expected 0.2 (0.02)
Passed Vit filter:                         1  (0.1); expected 0.0 (0.001)
Passed Fwd filter:                         1  (0.1); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00
# Mc/sec: 241.22
//
Query:       PKC80086.1  [L=490]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    5.8e-64  205.8   0.0      1e-63  204.9   0.0    1.4  2  Lyase_1   Lyase
    9.2e-21   64.0   0.1    3.1e-20   62.3   0.0    2.0  2  ASL_C2    Argininosuccinate lyase C-terminal


Domain annotation for each model:
>> Lyase_1  Lyase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  204.9   0.0     2e-64     1e-63       4     312 .]      16     308 ..      13     308 .. 0.95
   2 ?   -3.7   0.0      0.66       3.3     164     183 ..     386     405 ..     383     408 .. 0.84

>> ASL_C2  Argininosuccinate lyase C-terminal
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -3.7   0.0         2        10      42      53 ..      57      68 ..      46      77 .. 0.66
   2 !   62.3   0.0   6.2e-21   3.1e-20       1      68 [.     371     443 ..     371     444 .. 0.86



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (490 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         3  (0.3); expected 0.2 (0.02)
Passed bias filter:                        3  (0.3); expected 0.2 (0.02)
Passed Vit filter:                         2  (0.2); expected 0.0 (0.001)
Passed Fwd filter:                         2  (0.2); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00
# Mc/sec: 209.18
//
Query:       SUC62851.1  [L=393]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model        Description
    ------- ------ -----    ------- ------ -----   ---- --  --------     -----------
    2.4e-29   91.3   0.0    4.5e-29   90.4   0.0    1.5  1  Response_reg  Response regulator receiver domain
    2.4e-21   65.3   0.3    3.3e-20   61.7   0.0    2.9  3  HD_5          HD domain


Domain annotation for each model:
>> Response_reg  Response regulator receiver domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   90.4   0.0     9e-30   4.5e-29       1     111 [.      13     124 ..      13     125 .. 0.94

>> HD_5  HD domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 ?   -0.3   0.0      0.15      0.73      43      55 ..      67      79 ..      64      84 .. 0.89
   2 !   61.7   0.0   6.7e-21   3.3e-20       1      63 [.     236     305 ..     236     306 .. 0.95
   3 ?   -2.8   0.0       0.9       4.5      23      35 ..     373     385 ..     360     386 .. 0.68



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (393 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         3  (0.3); expected 0.2 (0.02)
Passed bias filter:                        2  (0.2); expected 0.2 (0.02)
Passed Vit filter:                         2  (0.2); expected 0.0 (0.001)
Passed Fwd filter:                         2  (0.2); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               2  [number of targets reported over threshold]
# CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00
# Mc/sec: 505.54
//
Query:       XP_963622.1  [L=494]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model          Description
    ------- ------ -----    ------- ------ -----   ---- --  --------       -----------
   2.5e-120  390.8   5.3   3.1e-120  390.5   5.3    1.1  1  Glyco_hydro_72  Glucanosyltransferase


Domain annotation for each model:
>> Glyco_hydro_72  Glucanosyltransferase
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  390.5   5.3  3.1e-121  3.1e-120       4     314 ..      13     333 ..      10     334 .. 0.93



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (494 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         2  (0.2); expected 0.2 (0.02)
Passed bias filter:                        2  (0.2); expected 0.2 (0.02)
Passed Vit filter:                         1  (0.1); expected 0.0 (0.001)
Passed Fwd filter:                         1  (0.1); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00
# Mc/sec: 243.99
//
Query:       sp|Q197F8  [L=458]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model:

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (458 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         0  (0); expected 0.2 (0.02)
Passed bias filter:                        0  (0); expected 0.2 (0.02)
Passed Vit filter:                         0  (0); expected 0.0 (0.001)
Passed Fwd filter:                         0  (0); expected 0.0 (1e-05)
Initial search space (Z):                 10  [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: 1286.88
//
Query:       sp|Q6GZX0  [L=204]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
      3e-24   75.1   0.0    4.1e-24   74.7   0.0    1.2  1  US22      US22 like


Domain annotation for each model:
>> US22  US22 like
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   74.7   0.0   4.1e-25   4.1e-24       4     121 ..      38     149 ..      35     153 .. 0.94



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (204 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         1  (0.1); expected 0.2 (0.02)
Passed bias filter:                        1  (0.1); expected 0.2 (0.02)
Passed Vit filter:                         1  (0.1); expected 0.0 (0.001)
Passed Fwd filter:                         1  (0.1); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.01u 0.00s 00:00:00.01 Elapsed: 00:00:00.00
# Mc/sec: 379.89
//
Query:       sp|Q6GZV2  [L=382]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model:

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (382 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         1  (0.1); expected 0.2 (0.02)
Passed bias filter:                        0  (0); expected 0.2 (0.02)
Passed Vit filter:                         0  (0); expected 0.0 (0.001)
Passed Fwd filter:                         0  (0); expected 0.0 (1e-05)
Initial search space (Z):                 10  [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: 1384.22
//
Query:       sp|Q6GZU4  [L=629]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------
    3.7e-12   35.6   0.1    6.5e-10   28.4   0.0    2.4  2  Rho_N     Rho termination factor, N-terminal domain


Domain annotation for each model:
>> Rho_N  Rho termination factor, N-terminal domain
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !   28.4   0.0   6.5e-11   6.5e-10       6      34 ..       3      31 ..       2      33 .. 0.93
   2 !    4.7   0.0    0.0016     0.016       8      20 ..     157     169 ..     152     174 .. 0.78



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (629 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         1  (0.1); expected 0.2 (0.02)
Passed bias filter:                        1  (0.1); expected 0.2 (0.02)
Passed Vit filter:                         1  (0.1); expected 0.0 (0.001)
Passed Fwd filter:                         1  (0.1); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00
# Mc/sec: 1687.90
//
Query:       tr|G8IHY6  [L=212]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
   1.5e-120  389.0  16.0   1.8e-120  388.8  16.0    1.0  1  Archaeal_AmoA  Archaeal ammonia monooxygenase subunit A (AmoA)


Domain annotation for each model:
>> Archaeal_AmoA  Archaeal ammonia monooxygenase subunit A (AmoA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  388.8  16.0  1.8e-121  1.8e-120       1     183 []      17     199 ..      17     199 .. 1.00



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (212 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         1  (0.1); expected 0.2 (0.02)
Passed bias filter:                        1  (0.1); expected 0.2 (0.02)
Passed Vit filter:                         1  (0.1); expected 0.0 (0.001)
Passed Fwd filter:                         1  (0.1); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00
# Mc/sec: 301.37
//
Query:       tr|A0A2S1TQ58  [L=212]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model         Description
    ------- ------ -----    ------- ------ -----   ---- --  --------      -----------
   5.5e-111  357.8  14.7   6.6e-111  357.6  14.7    1.0  1  Archaeal_AmoA  Archaeal ammonia monooxygenase subunit A (AmoA)


Domain annotation for each model:
>> Archaeal_AmoA  Archaeal ammonia monooxygenase subunit A (AmoA)
   #    score  bias  c-Evalue  i-Evalue hmmfrom  hmm to    alifrom  ali to    envfrom  env to     acc
 ---   ------ ----- --------- --------- ------- -------    ------- -------    ------- -------    ----
   1 !  357.6  14.7  6.6e-112  6.6e-111       1     183 []      17     199 ..      17     199 .. 1.00



Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (212 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         1  (0.1); expected 0.2 (0.02)
Passed bias filter:                        1  (0.1); expected 0.2 (0.02)
Passed Vit filter:                         1  (0.1); expected 0.0 (0.001)
Passed Fwd filter:                         1  (0.1); expected 0.0 (1e-05)
Initial search space (Z):                 10  [actual number of targets]
Domain search space  (domZ):               1  [number of targets reported over threshold]
# CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00
# Mc/sec: 393.76
//
Query:       tr|A0A126QUZ5  [L=222]
Scores for complete sequence (score includes all domains):
   --- full sequence ---   --- best 1 domain ---    -#dom-
    E-value  score  bias    E-value  score  bias    exp  N  Model    Description
    ------- ------ -----    ------- ------ -----   ---- --  -------- -----------

   [No hits detected that satisfy reporting thresholds]


Domain annotation for each model:

   [No targets detected that satisfy reporting thresholds]


Internal pipeline statistics summary:
-------------------------------------
Query sequence(s):                         1  (222 residues searched)
Target model(s):                          10  (1421 nodes)
Passed MSV filter:                         1  (0.1); expected 0.2 (0.02)
Passed bias filter:                        1  (0.1); expected 0.2 (0.02)
Passed Vit filter:                         0  (0); expected 0.0 (0.001)
Passed Fwd filter:                         0  (0); expected 0.0 (1e-05)
Initial search space (Z):                 10  [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: 995.48
//
[ok]
