# 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: 23S00173-1.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=1826410] 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 354246 355784 + cm no 0.51 Bacterial small subunit ribosomal RNA (2) ! 1.3e-48 1569.8 12.5 SSU_rRNA_bacteria 1059976 1058438 - cm no 0.51 Bacterial small subunit ribosomal RNA (3) ! 1.3e-48 1569.8 12.5 SSU_rRNA_bacteria 1070840 1069302 - cm no 0.51 Bacterial small subunit ribosomal RNA (4) ! 1.3e-48 1569.8 12.5 SSU_rRNA_bacteria 1810601 1812139 + cm no 0.51 Bacterial small subunit ribosomal RNA (5) ! 1.3e-48 1569.8 12.5 SSU_rRNA_bacteria 1816033 1817571 + cm no 0.51 Bacterial small subunit ribosomal RNA (6) ! 1.3e-48 1569.8 12.5 SSU_rRNA_bacteria 1821465 1823003 + cm no 0.51 Bacterial small subunit ribosomal RNA (7) ! 1.4e-48 1568.3 12.6 SSU_rRNA_bacteria 1065408 1063870 - cm no 0.51 Bacterial small subunit ribosomal RNA (8) ! 2.4e-09 63.8 0.0 5S_rRNA 1826286 1826399 + cm no 0.47 5S ribosomal RNA (9) ! 2.7e-09 63.4 0.0 5S_rRNA 359067 359180 + cm no 0.48 5S ribosomal RNA (10) ! 2.7e-09 63.4 0.0 5S_rRNA 1055155 1055042 - cm no 0.48 5S ribosomal RNA (11) ! 2.7e-09 63.4 0.0 5S_rRNA 1060587 1060474 - cm no 0.48 5S ribosomal RNA (12) ! 2.7e-09 63.4 0.0 5S_rRNA 1066019 1065906 - cm no 0.48 5S ribosomal RNA (13) ! 2.7e-09 63.4 0.0 5S_rRNA 1815422 1815535 + cm no 0.48 5S ribosomal RNA (14) ! 2.7e-09 63.4 0.0 5S_rRNA 1820854 1820967 + cm no 0.48 5S ribosomal RNA (15) ! 3.6e-05 2869.0 49.4 LSU_rRNA_bacteria 356093 358990 + cm no 0.50 Bacterial large subunit ribosomal RNA (16) ! 3.6e-05 2869.0 49.4 LSU_rRNA_bacteria 1058129 1055232 - cm no 0.50 Bacterial large subunit ribosomal RNA (17) ! 3.6e-05 2869.0 49.4 LSU_rRNA_bacteria 1063561 1060664 - cm no 0.50 Bacterial large subunit ribosomal RNA (18) ! 3.6e-05 2869.0 49.4 LSU_rRNA_bacteria 1068993 1066096 - cm no 0.50 Bacterial large subunit ribosomal RNA (19) ! 3.6e-05 2869.0 49.4 LSU_rRNA_bacteria 1812448 1815345 + cm no 0.50 Bacterial large subunit ribosomal RNA (20) ! 3.6e-05 2869.0 49.4 LSU_rRNA_bacteria 1817880 1820777 + cm no 0.50 Bacterial large subunit ribosomal RNA (21) ! 3.6e-05 2869.0 49.4 LSU_rRNA_bacteria 1823312 1826209 + cm no 0.50 Bacterial large subunit ribosomal RNA Internal CM pipeline statistics summary: ---------------------------------------- Query sequence(s): 1 (3652820 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: 726 (0.07195); expected (0.06) Windows passing local HMM Viterbi filter: 137 (0.01025); expected (0.02) Windows passing local HMM Viterbi bias filter: 135 (0.009622); expected (0.02) Windows passing local HMM Forward filter: 23 (0.005576); expected (0.0002) Windows passing local HMM Forward bias filter: 23 (0.005576); expected (0.0002) Windows passing glocal HMM Forward filter: 19 (0.005576); expected (0.0002) Windows passing glocal HMM Forward bias filter: 19 (0.005576); expected (0.0002) Envelopes passing glocal HMM envelope defn filter: 23 (0.003205); expected (0.0002) Envelopes passing glocal CM CYK filter: 23 (0.003204); expected (0.0001) Total CM hits reported: 21 (0.002901); includes 0 truncated hit(s) # CPU time: 32.95u 3.02s 00:00:35.97 Elapsed: 00:00:29.27 // [ok]