# --- full sequence ---- --- best 1 domain ---- --- domain number estimation ---- # target name accession query name accession E-value score bias E-value score bias exp reg clu ov env dom rep inc description of target #------------------- ---------- -------------------- ---------- --------- ------ ----- --------- ------ ----- --- --- --- --- --- --- --- --- --------------------- ETRAMP PF09716.10 gi|114329904|ref|YP_740806.1| - 0.068 13.2 0.6 4.6 7.4 0.1 2.8 2 0 0 2 2 2 0 Malarial early transcribed membrane protein (ETRAMP) Ribosomal_S13 PF00416.22 gi|114329906|ref|YP_740808.1| - 2.6e-08 34.3 0.0 8.3e-08 32.7 0.0 1.9 1 0 0 1 1 1 1 Ribosomal protein S13/S18 Rib_hydrolayse PF02267.17 gi|114329907|ref|YP_740809.1| - 0.11 11.9 0.3 0.11 11.8 0.3 1.3 1 1 0 1 1 1 0 ADP-ribosyl cyclase Ribosomal_S19 PF00203.21 gi|114329908|ref|YP_740810.1| - 2.7e-12 46.4 1.1 3.1e-12 46.2 1.1 1.1 1 0 0 1 1 1 1 Ribosomal protein S19 ATP_bind_2 PF03668.15 gi|114329908|ref|YP_740810.1| - 0.059 12.7 0.2 0.067 12.5 0.2 1.0 1 0 0 1 1 1 0 P-loop ATPase protein family Ribosomal_L2_C PF03947.18 gi|114329909|ref|YP_740811.1| - 1.3e-26 93.3 0.0 1.8e-26 92.8 0.0 1.2 1 0 0 1 1 1 1 Ribosomal Proteins L2, C-terminal domain Ribosomal_L2 PF00181.23 gi|114329909|ref|YP_740811.1| - 1.8e-07 31.0 0.6 4.2e-07 29.8 0.3 1.8 2 0 0 2 2 2 1 Ribosomal Proteins L2, RNA binding domain Oxidored_q6 PF01058.22 gi|114329910|ref|YP_740813.1| - 2.7e-19 69.3 0.0 3.5e-19 68.9 0.0 1.1 1 0 0 1 1 1 1 NADH ubiquinone oxidoreductase, 20 Kd subunit Ribosom_S12_S23 PF00164.25 gi|114329911|ref|YP_740814.1| - 5.4e-25 87.2 0.7 6.7e-25 86.9 0.7 1.1 1 0 0 1 1 1 1 Ribosomal protein S12/S23 Ribosomal_S12 PF17487.2 gi|114329911|ref|YP_740814.1| - 0.034 14.9 0.0 0.077 13.7 0.0 1.5 1 1 0 1 1 1 0 Ribosomal protein S12 DUF1003 PF06210.11 gi|114329913|ref|YP_740815.1| - 9 6.5 8.3 0.57 10.3 2.4 2.0 2 0 0 2 2 2 0 Protein of unknown function (DUF1003) Complex1_49kDa PF00346.19 gi|114329914|ref|YP_740816.1| - 3.8e-85 285.3 0.0 5.2e-85 284.8 0.0 1.2 1 0 0 1 1 1 1 Respiratory-chain NADH dehydrogenase, 49 Kd subunit RIIa PF02197.17 gi|114329914|ref|YP_740816.1| - 0.11 12.2 0.1 0.24 11.1 0.1 1.5 1 0 0 1 1 1 0 Regulatory subunit of type II PKA R-subunit DsbG_N PF18257.1 gi|114329916|ref|YP_740818.1| - 0.11 12.6 4.3 0.079 13.1 1.7 2.0 2 1 1 3 3 3 0 Disulfide isomerase DsbG N-terminal NADHdh PF00146.21 gi|114329919|ref|YP_740821.1| - 3.3e-08 33.2 3.9 3.4e-08 33.1 3.9 1.0 1 0 0 1 1 1 1 NADH dehydrogenase ATP-synt_C PF00137.21 gi|114329920|ref|YP_740822.1| - 1.3e-05 25.5 2.0 1.6e-05 25.1 2.0 1.2 1 0 0 1 1 1 1 ATP synthase subunit C DUF3082 PF11282.8 gi|114329920|ref|YP_740822.1| - 4 7.8 10.4 9.7 6.5 0.6 2.1 2 0 0 2 2 2 0 Protein of unknown function (DUF3082) Proton_antipo_M PF00361.20 gi|114329922|ref|YP_740824.1| - 1.8e-05 24.1 31.9 1.8e-05 24.1 31.9 2.5 1 1 2 3 3 3 1 Proton-conducting membrane transporter Ribosomal_L16 PF00252.18 gi|114329925|ref|YP_740827.1| - 1.1e-11 44.9 0.5 1.2e-11 44.7 0.5 1.1 1 0 0 1 1 1 1 Ribosomal protein L16p/L10e Cytochrom_C_asm PF01578.20 gi|114329926|ref|YP_740828.1| - 1.3e-07 31.6 32.5 1.3e-07 31.6 32.5 3.0 2 2 0 2 2 2 1 Cytochrome C assembly protein Oxidored_q4 PF00507.19 gi|114329928|ref|YP_740830.1| - 5.4e-17 61.8 14.7 5.4e-17 61.8 14.7 1.3 1 1 0 1 1 1 1 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 Phage_holin_2_3 PF16080.5 gi|114329928|ref|YP_740830.1| - 0.0038 17.0 0.6 0.0038 17.0 0.6 1.9 2 0 0 2 2 2 1 Bacteriophage holin family HP1 EI24 PF07264.11 gi|114329928|ref|YP_740830.1| - 0.01 16.1 11.3 0.03 14.6 11.1 1.6 1 1 0 1 1 1 0 Etoposide-induced protein 2.4 (EI24) RcsD_ABL PF16359.5 gi|114329928|ref|YP_740830.1| - 0.12 12.5 0.7 8.4 6.6 0.0 2.2 1 1 1 2 2 2 0 RcsD-ABL domain Complex1_30kDa PF00329.19 gi|114329931|ref|YP_740833.1| - 1.8e-14 54.4 0.0 2.3e-14 54.0 0.0 1.2 1 0 0 1 1 1 1 Respiratory-chain NADH dehydrogenase, 30 Kd subunit MalM PF07148.12 gi|114329932|ref|YP_740834.1| - 0.025 14.4 0.2 0.057 13.2 0.2 1.5 1 0 0 1 1 1 0 Maltose operon periplasmic protein precursor (MalM) Cytochrome_B PF00033.19 gi|114329933|ref|YP_740835.1| - 4.3e-17 62.5 10.8 4.3e-17 62.5 10.8 2.2 2 0 0 2 2 2 1 Cytochrome b/b6/petB Cytochrom_B_N_2 PF13631.6 gi|114329933|ref|YP_740835.1| - 9.1e-14 51.8 5.7 2.5e-13 50.4 5.7 1.7 1 0 0 1 1 1 1 Cytochrome b(N-terminal)/b6/petB Cytochrom_B_C PF00032.17 gi|114329933|ref|YP_740835.1| - 0.0017 18.6 3.1 0.0017 18.6 3.1 3.5 3 1 1 4 4 4 1 Cytochrome b(C-terminal)/b6/petD Proton_antipo_M PF00361.20 gi|114329934|ref|YP_740836.1| - 1.5e-65 221.3 27.3 1.5e-65 221.3 27.3 2.9 3 1 0 3 3 3 1 Proton-conducting membrane transporter Proton_antipo_N PF00662.20 gi|114329934|ref|YP_740836.1| - 4.1e-05 23.6 4.3 4.1e-05 23.6 4.3 5.2 6 1 0 6 6 6 1 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus COX2 PF00116.20 gi|114329935|ref|YP_740837.1| - 4e-27 94.5 0.4 5.5e-24 84.4 0.0 2.5 2 0 0 2 2 2 2 Cytochrome C oxidase subunit II, periplasmic domain FA_desaturase PF00487.24 gi|114329937|ref|YP_740839.1| - 0.92 9.3 9.9 0.27 11.0 5.4 2.1 2 0 0 2 2 2 0 Fatty acid desaturase COX1 PF00115.20 gi|114329940|ref|YP_740842.1| - 1.3e-92 311.0 63.4 1.4e-70 238.4 55.3 2.1 2 0 0 2 2 2 2 Cytochrome C and Quinol oxidase polypeptide I NADHdh PF00146.21 gi|114329941|ref|YP_740843.1| - 4.7e-63 213.3 24.4 5.8e-63 213.0 24.4 1.1 1 0 0 1 1 1 1 NADH dehydrogenase DUF2070 PF09843.9 gi|114329942|ref|YP_740844.1| - 9.1 4.4 25.9 12 4.1 25.9 1.1 1 0 0 1 1 1 0 Predicted membrane protein (DUF2070) Ribosomal_L14 PF00238.19 gi|114329943|ref|YP_740845.1| - 5.3e-21 75.0 0.1 6.3e-21 74.7 0.1 1.0 1 0 0 1 1 1 1 Ribosomal protein L14p/L23e Transposon_TraM PF12508.8 gi|114329943|ref|YP_740845.1| - 0.0024 17.6 0.1 0.0035 17.1 0.1 1.3 1 1 0 1 1 1 1 Conjugative transposon, TraM Proton_antipo_M PF00361.20 gi|114329945|ref|YP_740847.1| - 3.6e-50 170.8 27.2 3.6e-50 170.8 27.2 2.2 2 0 0 2 2 2 1 Proton-conducting membrane transporter Staygreen PF12638.7 gi|114329946|ref|YP_740848.1| - 0.068 13.0 4.4 0.087 12.6 0.8 2.1 2 0 0 2 2 2 0 Staygreen protein # # Program: hmmscan # Version: 3.2.1 (June 2018) # Pipeline mode: SCAN # Query file: /oak/stanford/groups/akundaje/marinovg/genomes/mitochondrial_genomes/Alveolata/Ciliates/Tetrahymena_pigmentosa.faa # Target file: /oak/stanford/groups/akundaje/marinovg/genomes/PFam/PFam32.0/Pfam-A.hmm # Option settings: /oak/stanford/groups/akundaje/marinovg/programs/hmmer-3.2.1/bin/hmmscan -o /oak/stanford/groups/akundaje/marinovg/genomes/mitochondrial_genomes/Alveolata/Ciliates/Tetrahymena_pigmentosa.PFam32-A --tblout /oak/stanford/groups/akundaje/marinovg/genomes/mitochondrial_genomes/Alveolata/Ciliates/Tetrahymena_pigmentosa.PFam32-A.tblout --cpu 20 /oak/stanford/groups/akundaje/marinovg/genomes/PFam/PFam32.0/Pfam-A.hmm /oak/stanford/groups/akundaje/marinovg/genomes/mitochondrial_genomes/Alveolata/Ciliates/Tetrahymena_pigmentosa.faa # Current dir: /oak/stanford/groups/akundaje/marinovg/genomes # Date: Mon Mar 25 20:01:11 2019 # [ok]