# --- 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 #------------------- ---------- -------------------- ---------- --------- ------ ----- --------- ------ ----- --- --- --- --- --- --- --- --- --------------------- Ribosomal_S13 PF00416.22 gi|345894121|ref|YP_004841711.1| - 1.5e-07 31.9 0.3 1e-06 29.2 0.0 2.3 2 1 1 3 3 3 1 Ribosomal protein S13/S18 Ribosomal_S19 PF00203.21 gi|345894123|ref|YP_004841713.1| - 7.3e-08 32.2 0.2 1.3e-07 31.4 0.2 1.4 1 1 0 1 1 1 1 Ribosomal protein S19 Ribosomal_L2_C PF03947.18 gi|345894124|ref|YP_004841714.1| - 1.7e-24 86.4 0.0 2.6e-24 85.8 0.0 1.2 1 0 0 1 1 1 1 Ribosomal Proteins L2, C-terminal domain Oxidored_q6 PF01058.22 gi|345894126|ref|YP_004841716.1| - 6.6e-19 68.0 0.0 8.4e-19 67.7 0.0 1.1 1 0 0 1 1 1 1 NADH ubiquinone oxidoreductase, 20 Kd subunit Ribosom_S12_S23 PF00164.25 gi|345894127|ref|YP_004841717.1| - 1.3e-23 82.8 2.0 1.8e-23 82.3 2.0 1.2 1 0 0 1 1 1 1 Ribosomal protein S12/S23 Proton_antipo_M PF00361.20 gi|345894128|ref|YP_004841718.1| - 6.7e-06 25.5 11.6 6.7e-06 25.5 11.6 1.6 1 1 0 1 1 1 1 Proton-conducting membrane transporter Complex1_49kDa PF00346.19 gi|345894129|ref|YP_004841719.1| - 1.4e-87 293.2 0.0 1.8e-87 292.9 0.0 1.1 1 0 0 1 1 1 1 Respiratory-chain NADH dehydrogenase, 49 Kd subunit Peptidase_M16_C PF05193.21 gi|345894129|ref|YP_004841719.1| - 0.051 13.6 0.0 0.71 9.9 0.0 2.4 2 1 0 2 2 2 0 Peptidase M16 inactive domain RIIa PF02197.17 gi|345894129|ref|YP_004841719.1| - 0.1 12.3 0.1 0.23 11.1 0.1 1.6 1 0 0 1 1 1 0 Regulatory subunit of type II PKA R-subunit Sporozoite_P67 PF05642.11 gi|345894133|ref|YP_004841723.1| - 7.4 4.5 5.1 9.7 4.1 5.1 1.1 1 0 0 1 1 1 0 Sporozoite P67 surface antigen ATP-synt_C PF00137.21 gi|345894134|ref|YP_004841724.1| - 0.00016 22.0 1.4 0.0002 21.6 1.4 1.2 1 0 0 1 1 1 1 ATP synthase subunit C DUF3082 PF11282.8 gi|345894134|ref|YP_004841724.1| - 9.7 6.5 11.5 1.2 9.5 2.6 2.1 2 0 0 2 2 2 0 Protein of unknown function (DUF3082) Ribosomal_S7 PF00177.21 gi|345894135|ref|YP_004841725.1| - 0.0029 17.3 0.0 0.0086 15.7 0.0 1.7 2 1 0 2 2 2 1 Ribosomal protein S7p/S5e Ribosomal_L16 PF00252.18 gi|345894138|ref|YP_004841728.1| - 1.6e-08 34.6 0.1 2.1e-08 34.3 0.1 1.2 1 0 0 1 1 1 1 Ribosomal protein L16p/L10e Cytochrom_C_asm PF01578.20 gi|345894139|ref|YP_004841729.1| - 6.4e-08 32.6 32.4 6.4e-08 32.6 32.4 3.8 1 1 2 3 3 3 1 Cytochrome C assembly protein Oxidored_q4 PF00507.19 gi|345894141|ref|YP_004841731.1| - 1.9e-17 63.2 14.5 1.9e-17 63.2 14.5 1.9 1 1 1 2 2 2 1 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 RcsD_ABL PF16359.5 gi|345894141|ref|YP_004841731.1| - 0.046 13.8 0.2 7.1 6.8 0.2 2.2 1 1 1 2 2 2 0 RcsD-ABL domain V_ATPase_I PF01496.19 gi|345894142|ref|YP_004841732.1| - 0.049 11.6 6.9 0.051 11.5 6.9 1.1 1 0 0 1 1 1 0 V-type ATPase 116kDa subunit family Complex1_30kDa PF00329.19 gi|345894143|ref|YP_004841733.1| - 5.3e-14 52.9 0.0 6.5e-14 52.6 0.0 1.1 1 0 0 1 1 1 1 Respiratory-chain NADH dehydrogenase, 30 Kd subunit NADHdh PF00146.21 gi|345894145|ref|YP_004841735.1| - 3e-08 33.3 3.9 3.4e-08 33.2 3.9 1.1 1 0 0 1 1 1 1 NADH dehydrogenase Gemini_mov PF01708.16 gi|345894145|ref|YP_004841735.1| - 2.4 8.0 5.6 0.43 10.4 2.0 1.6 1 1 1 2 2 2 0 Geminivirus putative movement protein Cytochrome_B PF00033.19 gi|345894146|ref|YP_004841736.1| - 1.5e-15 57.5 13.9 1.5e-15 57.5 13.9 2.2 2 1 0 2 2 2 1 Cytochrome b/b6/petB Cytochrom_B_N_2 PF13631.6 gi|345894146|ref|YP_004841736.1| - 2.7e-11 43.7 4.5 2.7e-11 43.7 4.5 2.2 2 0 0 2 2 2 1 Cytochrome b(N-terminal)/b6/petB Proton_antipo_M PF00361.20 gi|345894147|ref|YP_004841737.1| - 1.2e-58 198.6 28.4 1.2e-58 198.6 28.4 3.7 2 2 0 3 3 3 1 Proton-conducting membrane transporter Proton_antipo_N PF00662.20 gi|345894147|ref|YP_004841737.1| - 5.2e-06 26.4 6.8 5.2e-06 26.4 6.8 5.5 6 0 0 6 6 6 1 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus COX2 PF00116.20 gi|345894148|ref|YP_004841738.1| - 4.5e-27 94.3 0.4 2.7e-24 85.3 0.0 2.5 2 0 0 2 2 2 2 Cytochrome C oxidase subunit II, periplasmic domain COX1 PF00115.20 gi|345894152|ref|YP_004841742.1| - 6.1e-91 305.4 66.4 1.3e-70 238.4 51.8 2.1 1 1 0 2 2 2 2 Cytochrome C and Quinol oxidase polypeptide I NADHdh PF00146.21 gi|345894153|ref|YP_004841743.1| - 1.2e-63 215.2 24.2 1.4e-63 215.0 24.2 1.1 1 0 0 1 1 1 1 NADH dehydrogenase Ribosomal_L14 PF00238.19 gi|345894155|ref|YP_004841745.1| - 1.1e-19 70.7 0.2 1.3e-19 70.4 0.2 1.0 1 0 0 1 1 1 1 Ribosomal protein L14p/L23e Proton_antipo_M PF00361.20 gi|345894157|ref|YP_004841747.1| - 1.2e-45 155.9 33.5 1.2e-45 155.9 33.5 2.2 3 0 0 3 3 3 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/Ichthyophthirius_multifiliis.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/Ichthyophthirius_multifiliis.PFam32-A --tblout /oak/stanford/groups/akundaje/marinovg/genomes/mitochondrial_genomes/Alveolata/Ciliates/Ichthyophthirius_multifiliis.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/Ichthyophthirius_multifiliis.faa # Current dir: /oak/stanford/groups/akundaje/marinovg/genomes # Date: Mon Mar 25 19:52:14 2019 # [ok]