# nhmmer :: search a DNA model or alignment against a DNA 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 file: /usr/local/src/CheckM-1.0.7/data/hmms_ssu/SSU_euk.hmm # target sequence database: - # output directed to file: ssu/ssu.euk.txt # hits tabular output: ssu/ssu.euk.table.txt # show alignments in output: no # sequence reporting threshold: E-value <= 1e-05 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: silva.eukarya [M=1734] Scores for complete hits: E-value score bias Sequence start end Description ------- ------ ----- -------- ----- ----- ----------- 5.6e-59 196.0 6.2 255_T16_Agrococcus_397 2282 1759 7.4e-37 122.7 11.1 255_T16_Agrococcus_235 327 1 1.4e-36 121.7 9.3 255_T16_Agrococcus_415 1908 2234 5.4e-13 43.6 13.0 255_T16_Agrococcus_415 1504 1843 1.7e-11 38.6 10.0 255_T16_Agrococcus_235 749 394 4.3e-10 34.0 1.7 255_T16_Agrococcus_633 1 103 Annotation for each hit : >> 255_T16_Agrococcus_397 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 196.0 6.2 5.6e-59 1089 1624 .. 2282 1759 .. 2302 1739 .. 2310 0.86 >> 255_T16_Agrococcus_235 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 122.7 11.1 7.4e-37 850 1188 .. 327 1 .. 347 1 .. 3869 0.86 >> 255_T16_Agrococcus_415 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 121.7 9.3 1.4e-36 850 1188 .. 1908 2234 .] 1889 2234 .] 2234 0.86 >> 255_T16_Agrococcus_415 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 43.6 13.0 5.4e-13 284 621 .. 1504 1843 .. 1418 1864 .. 2234 0.67 >> 255_T16_Agrococcus_235 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 38.6 10.0 1.7e-11 272 619 .. 749 394 .. 771 373 .. 3869 0.65 >> 255_T16_Agrococcus_633 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 34.0 1.7 4.3e-10 1523 1624 .. 1 103 [. 1 123 [. 1531 0.94 Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (1734 nodes) Target sequences: 1005 (7678790 residues searched) Residues passing SSV filter: 33352 (0.00434); expected (0.02) Residues passing bias filter: 33352 (0.00434); expected (0.02) Residues passing Vit filter: 15537 (0.00202); expected (0.003) Residues passing Fwd filter: 9657 (0.00126); expected (3e-05) Total number of hits: 6 (0.000257) # CPU time: 1.51u 0.08s 00:00:01.59 Elapsed: 00:00:00.33 # Mc/sec: 40348.55 // [ok]