# --- 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|114329859|ref|YP_740762.1| - 0.19 11.8 1.2 4.8 7.3 0.2 2.8 2 0 0 2 2 2 0 Malarial early transcribed membrane protein (ETRAMP) DUF4064 PF13273.6 gi|114329859|ref|YP_740762.1| - 9.1 6.6 28.4 0.073 13.3 2.7 4.8 3 1 1 5 5 5 0 Protein of unknown function (DUF4064) Ribosomal_S13 PF00416.22 gi|114329861|ref|YP_740764.1| - 3.1e-08 34.1 1.0 1.3e-07 32.1 0.0 2.2 2 0 0 2 2 2 1 Ribosomal protein S13/S18 Ribosomal_S19 PF00203.21 gi|114329863|ref|YP_740766.1| - 2.8e-12 46.4 0.7 3.3e-12 46.1 0.7 1.2 1 0 0 1 1 1 1 Ribosomal protein S19 Ribosomal_L2_C PF03947.18 gi|114329864|ref|YP_740767.1| - 3.2e-26 92.0 0.0 4.9e-26 91.4 0.0 1.3 1 0 0 1 1 1 1 Ribosomal Proteins L2, C-terminal domain Ribosomal_L2 PF00181.23 gi|114329864|ref|YP_740767.1| - 1.1e-06 28.5 0.7 2.5e-06 27.3 0.7 1.6 1 0 0 1 1 1 1 Ribosomal Proteins L2, RNA binding domain Oxidored_q6 PF01058.22 gi|114329866|ref|YP_740769.1| - 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|114329867|ref|YP_740770.1| - 1.4e-23 82.7 1.0 1.6e-23 82.5 1.0 1.1 1 0 0 1 1 1 1 Ribosomal protein S12/S23 Ribosomal_S12 PF17487.2 gi|114329867|ref|YP_740770.1| - 0.11 13.2 0.0 0.25 12.1 0.0 1.5 1 1 0 1 1 1 0 Ribosomal protein S12 DUF1003 PF06210.11 gi|114329868|ref|YP_740771.1| - 0.01 15.9 3.0 0.01 15.9 3.0 2.2 2 1 0 2 2 2 0 Protein of unknown function (DUF1003) Complex1_49kDa PF00346.19 gi|114329869|ref|YP_740772.1| - 5.8e-87 291.2 0.0 7.4e-87 290.9 0.0 1.1 1 0 0 1 1 1 1 Respiratory-chain NADH dehydrogenase, 49 Kd subunit RIIa PF02197.17 gi|114329869|ref|YP_740772.1| - 0.12 12.1 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 NADHdh PF00146.21 gi|114329874|ref|YP_740777.1| - 2.3e-08 33.7 5.1 2.5e-08 33.6 5.1 1.1 1 0 0 1 1 1 1 NADH dehydrogenase ATP-synt_C PF00137.21 gi|114329875|ref|YP_740778.1| - 7.8e-06 26.1 1.8 9.7e-06 25.8 1.8 1.2 1 0 0 1 1 1 1 ATP synthase subunit C DUF3082 PF11282.8 gi|114329875|ref|YP_740778.1| - 1.4 9.2 8.8 6.1 7.2 2.0 2.1 2 0 0 2 2 2 0 Protein of unknown function (DUF3082) Ribosomal_L16 PF00252.18 gi|114329880|ref|YP_740783.1| - 4.4e-13 49.4 0.1 4.7e-13 49.3 0.1 1.0 1 0 0 1 1 1 1 Ribosomal protein L16p/L10e MGDG_synth PF06925.11 gi|114329880|ref|YP_740783.1| - 0.17 12.0 2.3 0.26 11.4 2.3 1.2 1 0 0 1 1 1 0 Monogalactosyldiacylglycerol (MGDG) synthase Cytochrom_C_asm PF01578.20 gi|114329881|ref|YP_740784.1| - 8.4e-09 35.5 29.0 8.4e-09 35.5 29.0 3.3 1 1 0 2 2 2 1 Cytochrome C assembly protein Oxidored_q4 PF00507.19 gi|114329883|ref|YP_740786.1| - 3.8e-16 59.1 19.2 3.9e-16 59.0 17.9 1.6 1 1 1 2 2 2 1 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 Presenilin PF01080.17 gi|114329883|ref|YP_740786.1| - 0.34 9.6 9.2 0.38 9.5 9.2 1.0 1 0 0 1 1 1 0 Presenilin Complex1_30kDa PF00329.19 gi|114329886|ref|YP_740789.1| - 3.1e-14 53.6 0.0 4e-14 53.3 0.0 1.2 1 0 0 1 1 1 1 Respiratory-chain NADH dehydrogenase, 30 Kd subunit Cytochrome_B PF00033.19 gi|114329888|ref|YP_740791.1| - 4.5e-14 52.7 10.7 4.5e-14 52.7 10.7 2.8 3 0 0 3 3 3 1 Cytochrome b/b6/petB Cytochrom_B_N_2 PF13631.6 gi|114329888|ref|YP_740791.1| - 4.2e-11 43.2 4.6 1e-10 41.9 4.6 1.6 1 0 0 1 1 1 1 Cytochrome b(N-terminal)/b6/petB Proton_antipo_M PF00361.20 gi|114329889|ref|YP_740792.1| - 2.7e-63 213.9 26.4 2.7e-63 213.9 26.4 3.2 4 1 0 4 4 4 1 Proton-conducting membrane transporter Proton_antipo_N PF00662.20 gi|114329889|ref|YP_740792.1| - 0.00041 20.4 5.8 0.00041 20.4 5.8 5.1 6 1 0 6 6 6 1 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus COX2 PF00116.20 gi|114329890|ref|YP_740793.1| - 3.9e-26 91.3 2.3 1.6e-23 82.8 0.1 2.7 3 0 0 3 3 3 2 Cytochrome C oxidase subunit II, periplasmic domain COX1 PF00115.20 gi|114329895|ref|YP_740798.1| - 1.2e-88 297.8 69.9 7e-68 229.5 57.4 2.1 1 1 0 2 2 2 2 Cytochrome C and Quinol oxidase polypeptide I NADHdh PF00146.21 gi|114329896|ref|YP_740799.1| - 1.4e-62 211.7 26.7 1.7e-62 211.4 26.7 1.2 1 0 0 1 1 1 1 NADH dehydrogenase Ribosomal_L14 PF00238.19 gi|114329898|ref|YP_740801.1| - 1.5e-21 76.7 0.1 1.8e-21 76.5 0.1 1.0 1 0 0 1 1 1 1 Ribosomal protein L14p/L23e Transposon_TraM PF12508.8 gi|114329898|ref|YP_740801.1| - 0.0057 16.4 0.0 0.0073 16.0 0.0 1.2 1 0 0 1 1 1 1 Conjugative transposon, TraM MPS-4 PF17523.2 gi|114329899|ref|YP_740802.1| - 0.91 9.7 8.3 0.95 9.6 7.9 1.4 1 1 0 1 1 1 0 MinK-related peptide, potassium channel accessory sub-unit protein 4 Proton_antipo_M PF00361.20 gi|114329900|ref|YP_740803.1| - 2.2e-49 168.3 28.0 2.2e-49 168.3 28.0 2.2 2 1 0 2 2 2 1 Proton-conducting membrane transporter # # Program: hmmscan # Version: 3.2.1 (June 2018) # Pipeline mode: SCAN # Query file: /oak/stanford/groups/akundaje/marinovg/genomes/mitochondrial_genomes/Alveolata/Ciliates/Tetrahymena_paravorax.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_paravorax.PFam32-A --tblout /oak/stanford/groups/akundaje/marinovg/genomes/mitochondrial_genomes/Alveolata/Ciliates/Tetrahymena_paravorax.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_paravorax.faa # Current dir: /oak/stanford/groups/akundaje/marinovg/genomes # Date: Mon Mar 25 20:01:13 2019 # [ok]