# 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:                   23S00175-1.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=1846905]
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  254050  252512 -  cm    no 0.51  Bacterial small subunit ribosomal RNA
  (2) !   1.3e-48 1569.8  12.5  SSU_rRNA_bacteria 1060180 1061718 +  cm    no 0.51  Bacterial small subunit ribosomal RNA
  (3) !   1.9e-48 1564.4  12.0  SSU_rRNA_bacteria 1426283 1427821 +  cm    no 0.51  Bacterial small subunit ribosomal RNA
  (4) !   2.7e-09   63.4   0.0  5S_rRNA            249229  249116 -  cm    no 0.48  5S ribosomal RNA
  (5) !   2.7e-09   63.4   0.0  5S_rRNA           1065001 1065114 +  cm    no 0.48  5S ribosomal RNA
  (6) !   2.7e-09   63.4   0.0  5S_rRNA           1431104 1431217 +  cm    no 0.48  5S ribosomal RNA
  (7) !   3.6e-05 2870.7  49.4  LSU_rRNA_bacteria 1062027 1064924 +  cm    no 0.50  Bacterial large subunit ribosomal RNA
  (8) !   3.7e-05 2869.0  49.4  LSU_rRNA_bacteria  252203  249306 -  cm    no 0.50  Bacterial large subunit ribosomal RNA
  (9) !   3.7e-05 2869.0  49.4  LSU_rRNA_bacteria 1428130 1431027 +  cm    no 0.50  Bacterial large subunit ribosomal RNA


Internal CM pipeline statistics summary:
----------------------------------------
Query sequence(s):                                               1  (3693810 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:             702  (0.0653); expected (0.06)
Windows   passing  local HMM Viterbi       filter:             111  (0.006632); expected (0.02)
Windows   passing  local HMM Viterbi  bias filter:             108  (0.005804); expected (0.02)
Windows   passing  local HMM Forward       filter:              10  (0.002283); expected (0.0002)
Windows   passing  local HMM Forward  bias filter:              10  (0.002283); expected (0.0002)
Windows   passing glocal HMM Forward       filter:               9  (0.002265); expected (0.0002)
Windows   passing glocal HMM Forward  bias filter:               9  (0.002265); expected (0.0002)
Envelopes passing glocal HMM envelope defn filter:               9  (0.001236); expected (0.0002)
Envelopes passing glocal CM  CYK           filter:               9  (0.001235); expected (0.0001)
Total CM hits reported:                                          9  (0.001229); includes 0 truncated hit(s)

# CPU time: 13.24u 1.32s 00:00:14.56 Elapsed: 00:00:11.21
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