# cmscan :: search sequence(s) against a CM database
# INFERNAL 1.1.4 (Dec 2020)
# Copyright (C) 2020 Howard Hughes Medical Institute.
# Freely distributed under the BSD open source license.
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
# query sequence file:                   23S00171-1.fna
# target CM database:                    /mnt/data/db/bakta/db/rRNA
# CM configuration:                      glocal
# show alignments in output:             no
# model-specific thresholding:           TC cutoffs
# Rfam pipeline mode:                    on [strict filtering]
# HMM-only mode for 0 basepair models:   no
# number of worker threads:              24
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query:       1  [L=1889255]
Hit scores:
 rank     E-value  score  bias  modelname           start     end   mdl trunc   gc  description
 ----   --------- ------ -----  ----------------- ------- -------   --- ----- ----  -----------
  (1) !   1.3e-48 1569.8  12.5  SSU_rRNA_bacteria  217615  216077 -  cm    no 0.51  Bacterial small subunit ribosomal RNA
  (2) !   1.3e-48 1569.8  12.5  SSU_rRNA_bacteria  223047  221509 -  cm    no 0.51  Bacterial small subunit ribosomal RNA
  (3) !   1.3e-48 1569.8  12.5  SSU_rRNA_bacteria 1047294 1048832 +  cm    no 0.51  Bacterial small subunit ribosomal RNA
  (4) !   1.3e-48 1569.8  12.5  SSU_rRNA_bacteria 1052726 1054264 +  cm    no 0.51  Bacterial small subunit ribosomal RNA
  (5) !   1.3e-48 1569.8  12.5  SSU_rRNA_bacteria 1739722 1738184 -  cm    no 0.51  Bacterial small subunit ribosomal RNA
  (6) !   1.5e-48 1567.7  12.5  SSU_rRNA_bacteria  212183  210645 -  cm    no 0.51  Bacterial small subunit ribosomal RNA
  (7) !   2.8e-09   63.4   0.0  5S_rRNA            207362  207249 -  cm    no 0.48  5S ribosomal RNA
  (8) !   2.8e-09   63.4   0.0  5S_rRNA            212794  212681 -  cm    no 0.48  5S ribosomal RNA
  (9) !   2.8e-09   63.4   0.0  5S_rRNA            218226  218113 -  cm    no 0.48  5S ribosomal RNA
 (10) !   2.8e-09   63.4   0.0  5S_rRNA           1052115 1052228 +  cm    no 0.48  5S ribosomal RNA
 (11) !   2.8e-09   63.4   0.0  5S_rRNA           1057547 1057660 +  cm    no 0.48  5S ribosomal RNA
 (12) !   2.8e-09   63.4   0.0  5S_rRNA           1734901 1734788 -  cm    no 0.48  5S ribosomal RNA
 (13) !   3.7e-05 2870.7  49.4  LSU_rRNA_bacteria  215768  212871 -  cm    no 0.50  Bacterial large subunit ribosomal RNA
 (14) !   3.8e-05 2869.0  49.4  LSU_rRNA_bacteria  210336  207439 -  cm    no 0.50  Bacterial large subunit ribosomal RNA
 (15) !   3.8e-05 2869.0  49.4  LSU_rRNA_bacteria  221200  218303 -  cm    no 0.50  Bacterial large subunit ribosomal RNA
 (16) !   3.8e-05 2869.0  49.4  LSU_rRNA_bacteria 1049141 1052038 +  cm    no 0.50  Bacterial large subunit ribosomal RNA
 (17) !   3.8e-05 2869.0  49.4  LSU_rRNA_bacteria 1054573 1057470 +  cm    no 0.50  Bacterial large subunit ribosomal RNA
 (18) !   3.8e-05 2869.0  49.4  LSU_rRNA_bacteria 1737875 1734978 -  cm    no 0.50  Bacterial large subunit ribosomal RNA


Internal CM pipeline statistics summary:
----------------------------------------
Query sequence(s):                                               1  (3778510 residues searched)
Query sequences re-searched for truncated hits:                  1  (7934.7 residues re-searched, avg per model)
Target model(s):                                                 3  (4577 consensus positions)
Windows   passing  local HMM SSV           filter:             749  (0.07195); expected (0.06)
Windows   passing  local HMM Viterbi       filter:             128  (0.008677); expected (0.02)
Windows   passing  local HMM Viterbi  bias filter:             125  (0.007868); expected (0.02)
Windows   passing  local HMM Forward       filter:              18  (0.004409); expected (0.0002)
Windows   passing  local HMM Forward  bias filter:              18  (0.004409); expected (0.0002)
Windows   passing glocal HMM Forward       filter:              15  (0.004409); expected (0.0002)
Windows   passing glocal HMM Forward  bias filter:              15  (0.004409); expected (0.0002)
Envelopes passing glocal HMM envelope defn filter:              18  (0.002414); expected (0.0002)
Envelopes passing glocal CM  CYK           filter:              18  (0.002414); expected (0.0001)
Total CM hits reported:                                         18  (0.002404); includes 0 truncated hit(s)

# CPU time: 25.54u 2.86s 00:00:28.40 Elapsed: 00:00:22.72
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