# 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_archaea.hmm # target sequence database: - # output directed to file: ssu/ssu.archaea.txt # hits tabular output: ssu/ssu.archaea.table.txt # show alignments in output: no # sequence reporting threshold: E-value <= 1e-05 # number of worker threads: 8 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: archaea [M=1381] Scores for complete hits: E-value score bias Sequence start end Description ------- ------ ----- -------- ----- ----- ----------- 7.3e-216 720.6 37.3 CARPRO_18 5155 3647 id=20114 bin=CARPRO alias=CARPRO_23 1e-213 713.4 13.4 CARSEP3_4 1444 20 id=20220 bin=CARSEP3 alias=CARSEP3_560 7.7e-137 459.0 15.8 CARSEP3_12 990 8 id=20228 bin=CARSEP3 alias=CARSEP3_523 7.3e-100 336.5 13.8 CARSEP3_8 66322 67138 id=20224 bin=CARSEP3 alias=CARSEP3_507 1.3e-80 272.8 12.2 CARSEP3_17 752 2 id=20233 bin=CARSEP3 alias=CARSEP3_528 3e-78 265.0 16.4 CAREFA_8 769 2 id=20265 bin=CAREFA alias=CAREFA_6 3.7e-76 258.0 12.7 CARSEP3_14 84794 85517 id=20230 bin=CARSEP3 alias=CARSEP3_505 3.8e-72 244.8 15.9 CAREFA_7 63110 63843 id=20264 bin=CAREFA 1.2e-71 243.1 15.9 CAREFA_6 733 1 id=20263 bin=CAREFA alias=CAREFA_5 Annotation for each hit : >> CARPRO_18 id=20114 bin=CARPRO alias=CARPRO_23 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 720.6 37.3 7.3e-216 10 1378 .. 5155 3647 .. 5165 3644 .. 5368 0.92 >> CARSEP3_4 id=20220 bin=CARSEP3 alias=CARSEP3_560 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 713.4 13.4 1e-213 10 1295 .. 1444 20 .. 1454 4 .. 185661 0.93 >> CARSEP3_12 id=20228 bin=CARSEP3 alias=CARSEP3_523 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 459.0 15.8 7.7e-137 10 883 .. 990 8 .. 1000 4 .. 128367 0.94 >> CARSEP3_8 id=20224 bin=CARSEP3 alias=CARSEP3_507 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 336.5 13.8 7.3e-100 10 715 .. 66322 67138 .. 66312 67141 .] 67141 0.94 >> CARSEP3_17 id=20233 bin=CARSEP3 alias=CARSEP3_528 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 272.8 12.2 1.3e-80 10 649 .. 752 2 .. 762 1 .. 40854 0.94 >> CAREFA_8 id=20265 bin=CAREFA alias=CAREFA_6 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 265.0 16.4 3e-78 10 655 .. 769 2 .. 778 1 .. 222047 0.92 >> CARSEP3_14 id=20230 bin=CARSEP3 alias=CARSEP3_505 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 258.0 12.7 3.7e-76 10 622 .. 84794 85517 .] 84784 85517 .] 85517 0.94 >> CAREFA_7 id=20264 bin=CAREFA score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 244.8 15.9 3.8e-72 10 621 .. 63110 63843 .] 63101 63843 .] 63843 0.92 >> CAREFA_6 id=20263 bin=CAREFA alias=CAREFA_5 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- ! 243.1 15.9 1.2e-71 10 620 .. 733 1 .. 742 1 .. 280602 0.92 Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (1381 nodes) Target sequences: 2320 (56837224 residues searched) Residues passing SSV filter: 676239 (0.0119); expected (0.02) Residues passing bias filter: 610741 (0.0107); expected (0.02) Residues passing Vit filter: 35022 (0.000616); expected (0.003) Residues passing Fwd filter: 13362 (0.000235); expected (3e-05) Total number of hits: 9 (0.000149) # CPU time: 7.75u 0.16s 00:00:07.91 Elapsed: 00:00:01.01 # Mc/sec: 77715.06 // [ok]