# --- full sequence --- -------------- this domain ------------- hmm coord ali coord env coord # target name accession tlen query name accession qlen E-value score bias # of c-Evalue i-Evalue score bias from to from to from to acc description of target #------------------- ---------- ----- -------------------- ---------- ----- --------- ------ ----- --- --- --------- --------- ------ ----- ----- ----- ----- ----- ----- ----- ---- --------------------- 1_6 - 455 HTH_17 PF12728.2 51 1e-05 15.5 0.0 1 1 4.8e-06 4.8e-05 13.3 0.0 4 22 435 453 434 454 0.90 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 2_2 - 308 HVSL PF09749.4 239 7e-06 14.8 0.9 1 1 1.2e-06 1.2e-05 14.0 0.9 135 237 83 207 68 209 0.79 # 1205 # 2128 # 1 # ID=2_2;partial=00;start_type=ATG;rbs_motif=TAA;rbs_spacer=10bp;gc_cont=0.288 1_6 - 455 Sigma70_r4_2 PF08281.7 54 7.1e-06 15.2 0.0 1 1 4.6e-06 4.6e-05 12.6 0.0 27 47 433 453 432 454 0.89 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_6 - 455 HTH_22 PF13309.1 64 4.2e-07 19.4 0.1 1 1 1.2e-07 1.2e-06 17.9 0.0 46 64 436 454 432 454 0.89 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_6 - 455 NUMOD1 PF07453.8 37 2.3e-05 14.0 0.0 1 1 6.3e-06 6.3e-05 12.5 0.0 20 37 436 453 433 453 0.92 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_7 - 168 ALMT PF11744.3 406 0.042 2.0 10.1 1 1 0.004 0.04 2.1 9.4 298 371 71 141 43 162 0.67 # 6268 # 6771 # 1 # ID=1_7;partial=00;start_type=ATG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.292 1_4 - 447 HTH_29 PF13551.1 112 3.9e-05 13.5 1.4 1 2 0.00062 0.0031 7.4 0.4 23 57 65 98 35 143 0.68 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_4 - 447 HTH_29 PF13551.1 112 3.9e-05 13.5 1.4 2 2 0.086 0.43 0.5 0.0 88 111 223 245 212 246 0.83 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_6 - 455 HTH_29 PF13551.1 112 4e-05 13.4 0.0 1 1 1.9e-05 9.5e-05 12.3 0.0 12 34 433 454 420 454 0.83 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_6 - 455 Terminase_5 PF06056.7 58 1.9e-05 13.9 0.0 1 1 5.2e-06 5.2e-05 12.5 0.0 15 33 434 452 432 454 0.92 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_6 - 455 HTH_24 PF13412.1 48 5.2e-08 21.9 0.0 1 1 1.2e-08 1.2e-07 20.8 0.0 10 39 425 454 425 454 0.95 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_6 - 455 HTH_AsnC-type PF13404.1 42 6.9e-06 15.3 0.0 1 1 1.9e-06 1.9e-05 13.9 0.0 11 35 426 450 425 451 0.91 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_1 - 249 KNTase_C PF07827.6 143 1.6e-88 283.4 0.0 1 1 2.1e-89 2.1e-88 283.0 0.0 1 143 106 248 106 248 1.00 # 1 # 747 # 1 # ID=1_1;partial=10;start_type=Edge;rbs_motif=None;rbs_spacer=None;gc_cont=0.426 1_6 - 455 HTH_IclR PF09339.5 52 2.4e-06 16.8 0.0 1 1 6.1e-07 6.1e-06 15.5 0.0 15 39 429 453 425 454 0.83 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_6 - 455 HTH_7 PF02796.10 45 6.4e-08 22.1 0.0 1 1 2.3e-08 2.3e-07 20.4 0.0 22 43 433 454 415 454 0.80 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 2_1 - 162 Aminoglyc_resit PF10706.4 174 7e-12 34.9 0.1 1 1 7.7e-13 7.7e-12 34.8 0.1 12 129 14 138 3 160 0.78 # 454 # 939 # -1 # ID=2_1;partial=00;start_type=ATG;rbs_motif=TAAA;rbs_spacer=14bp;gc_cont=0.276 1_6 - 455 HTH_23 PF13384.1 50 4.6e-08 22.3 0.0 1 1 1.3e-08 1.3e-07 20.9 0.0 15 38 427 453 421 454 0.82 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_4 - 447 rve_2 PF13333.1 52 1.3e-15 46.9 1.3 1 1 3.1e-16 3.1e-15 45.8 0.7 1 52 389 443 389 443 0.92 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_6 - 455 HTH_11 PF08279.7 55 1.9e-08 23.6 0.0 1 1 4.7e-09 4.7e-08 22.4 0.0 5 36 422 453 419 454 0.85 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_4 - 447 HTH_28 PF13518.1 52 2.9e-08 23.4 2.1 1 2 5.3e-06 2.7e-05 13.9 0.4 1 49 34 91 34 95 0.86 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_4 - 447 HTH_28 PF13518.1 52 2.9e-08 23.4 2.1 2 2 0.0037 0.019 4.8 0.1 2 35 151 188 150 197 0.77 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_6 - 455 HTH_28 PF13518.1 52 5.5e-07 19.3 0.0 1 1 2.4e-07 1.2e-06 18.2 0.0 6 33 423 453 419 454 0.85 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_8 - 119 MethyltransfD12 PF02086.10 260 1.9e-17 53.2 1.3 1 1 2e-18 2e-17 53.0 1.3 1 78 13 86 13 117 0.84 # 6793 # 7149 # 1 # ID=1_8;partial=00;start_type=ATG;rbs_motif=AGGAG;rbs_spacer=5-10bp;gc_cont=0.255 1_6 - 455 CENP-B_N PF04218.8 53 1.1e-05 14.6 0.0 1 1 4.8e-06 4.8e-05 12.5 0.0 18 41 426 451 419 454 0.90 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_1 - 249 NTP_transf_2 PF01909.18 93 1.9e-11 33.9 0.0 1 1 4e-12 4e-11 32.9 0.0 2 61 12 73 11 105 0.73 # 1 # 747 # 1 # ID=1_1;partial=10;start_type=Edge;rbs_motif=None;rbs_spacer=None;gc_cont=0.426 1_4 - 447 rve_3 PF13683.1 67 1.2e-15 46.6 0.0 1 1 2.9e-16 2.9e-15 45.3 0.0 2 67 371 435 370 435 0.96 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_6 - 455 TetR_N PF00440.18 47 2.4e-05 13.7 0.1 1 2 0.027 0.27 0.7 0.0 12 27 364 379 355 381 0.76 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_6 - 455 TetR_N PF00440.18 47 2.4e-05 13.7 0.1 2 2 6e-05 0.0006 9.2 0.0 21 36 437 452 434 452 0.95 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_4 - 447 rve PF00665.21 120 6e-19 58.0 0.0 1 1 1.2e-19 1.2e-18 57.0 0.0 7 118 285 397 281 399 0.87 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_4 - 447 HTH_Tnp_1 PF01527.15 76 3.9e-08 22.9 3.9 1 2 9.9e-07 9.9e-06 15.2 0.2 3 64 26 108 24 120 0.64 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_4 - 447 HTH_Tnp_1 PF01527.15 76 3.9e-08 22.9 3.9 2 2 0.0047 0.047 3.4 0.0 12 47 155 189 151 206 0.84 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_6 - 455 HTH_38 PF13936.1 44 1e-05 14.8 0.0 1 1 2.3e-06 2.3e-05 13.6 0.0 21 41 433 453 425 454 0.90 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 2_1 - 162 NTP_transf_5 PF14907.1 249 1.3e-09 27.4 0.2 1 1 1.4e-10 1.4e-09 27.2 0.2 86 188 36 142 2 155 0.69 # 454 # 939 # -1 # ID=2_1;partial=00;start_type=ATG;rbs_motif=TAAA;rbs_spacer=14bp;gc_cont=0.276 1_6 - 455 HTH_Tnp_IS630 PF01710.11 120 7.9e-06 15.3 0.7 1 2 0.081 0.81 -0.9 0.1 56 88 175 206 162 221 0.52 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_6 - 455 HTH_Tnp_IS630 PF01710.11 120 7.9e-06 15.3 0.7 2 2 7.8e-06 7.8e-05 12.0 0.0 62 90 423 451 408 454 0.89 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_6 - 455 HTH_3 PF01381.17 55 2e-05 14.1 0.0 1 1 5.8e-06 5.8e-05 12.6 0.0 2 31 424 454 423 454 0.83 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_4 - 447 HTH_21 PF13276.1 60 2e-13 39.9 0.3 1 1 7.5e-14 7.5e-13 38.1 0.2 6 57 202 252 196 257 0.90 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_6 - 455 TrmB PF01978.14 68 2.3e-05 13.8 0.4 1 1 1.2e-05 0.00012 11.5 0.0 25 43 435 453 427 454 0.88 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_6 - 455 HTH_32 PF13565.1 77 5.8e-06 16.8 0.1 1 1 3.4e-06 1.7e-05 15.3 0.1 26 77 414 453 386 453 0.77 # 4815 # 6179 # 1 # ID=1_6;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.302 1_4 - 447 HTH_32 PF13565.1 77 1.3e-05 15.7 1.1 1 2 0.0021 0.01 6.4 0.4 2 46 71 114 70 186 0.76 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 1_4 - 447 HTH_32 PF13565.1 77 1.3e-05 15.7 1.1 2 2 0.0013 0.0065 7.0 0.0 22 77 189 242 181 242 0.83 # 2102 # 3442 # -1 # ID=1_4;partial=00;start_type=TTG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.365 # # Program: hmmsearch # Version: 3.1b2 (February 2015) # Pipeline mode: SEARCH # Query file: /tmp/f6e6fe4d-5df1-4a3c-a3cf-2c9e909bbfd6 # Target file: checkm_output/bins/pGCA_001887075.1.assembled/genes.faa # Option settings: hmmsearch --domtblout checkm_output/bins/pGCA_001887075.1.assembled/hmmer.analyze.txt --noali --notextw -E 0.1 --domE 0.1 --cpu 1 /tmp/f6e6fe4d-5df1-4a3c-a3cf-2c9e909bbfd6 checkm_output/bins/pGCA_001887075.1.assembled/genes.faa # Current dir: /mnt/DGK_KLIF/data/klif/reads-for-assembly/trainingsets2/Staphylococcus/training_20210111 # Date: Mon Jan 11 14:54:13 2021 # [ok]