| Species | Sequence Name Source |
|---|
| Aquifex aeolicus VF5 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Aquifex_aeolicus/ |
| Thermotoga maritima MSB8 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Thermotoga_maritima/ |
| Dehalococcoides ethenogenes 195 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Dehalococcoides_ethenogenes_195 |
| Deinococcus radiodurans R1 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Deinococcus_radiodurans/ |
| Treponema pallidum subsp. pallidum str. Nichols |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Treponema_pallidum/ |
| Chlorobium tepidum TLS |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Chlorobium_tepidum_TLS/ |
| Rhodopirellula baltica SH_1 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Pirellula_sp/ |
| Chlamydophila pneumoniae CWL029 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Chlamydophila_pneumoniae_CWL029/ |
| Synechococcus sp. WH8102 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Synechococcus_sp_WH8102/ |
| Mycobacterium tuberculosis H37Rv |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Mycobacterium_tuberculosis_H37Rv/ |
| Bacillus anthracis Ames Ames |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Bacillus_anthracis_Ames/ |
| Wolinella succinogenes DSM 1740 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Wolinella_succinogenes/ |
| Geobacter sulfurreducens PCA |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Geobacter_sulfurreducens/ |
| Agrobacterium tumefaciens C58 Uwash |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Agrobacterium_tumefaciens_C58_UWash/ |
| Ralstonia solanacearum GMI1000 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Ralstonia_solanacearum/ |
| Escherichia coli K12 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Escherichia_coli_K12/ |
| Halobacterium sp. NRC-1 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Halobacterium_sp/ |
| Methanococcus jannaschii DSSM 2661 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Methanococcus_jannaschii/ |
| Sulfolobus solfataricus P2 |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Sulfolobus_solfataricus/ |
| Nanoarchaeum equitans Kin4-M |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Bacteria/Nanoarchaeum_equitans/ |
| Entamoeba histolytica |
TIGR, ftp://ftp.tigr.org/pub/data/Eukaryotic_Projects/e_histolytica/annotation_dbs/EHA1.pep |
| Dictyostelium discoideum |
dictyBase, http://www.dictybase.org/db/cgi-bin/dictyBase/download/download.pl?area=blast_databases&ID=dicty_primary_protein.gz |
| Plasmodium falciparum 3D7 |
PlasmoDB, v4.4, http://plasmodb.org/restricted/data/P_falciparum/WG/cds.aa/Pfa3D7_WholeGenome_Annotated_PEP_2005.2.11.fasta |
| Plasmodium yoelii 17XNL |
PlasmoDB, v4.4, http://www.plasmodb.org/restricted/data/P_yoelii/Whole_genome/cds.aa/Pyoelii_WholeGenome_Annotated_PEP_2002.9.10.fasta |
| Plasmodium knowlesi |
PlasmoDB, v4.3, http://www.plasmodb.org/restricted/data/P_knowlesi/WG/cds.aa/pkn_prots.db |
| Cryptosporidium parvum Iowa (Type2) |
CryptoDB, http://cryptodb.org/download/public/pep/genomic/CpIOWA/CpIOWA_protein.gz |
| Cryptosporidium hominis TU502 (Type 1) |
CryptoDB, http://cryptodb.org/download/public/pep/genomic/ChTU502/ChTU502_protein.gz |
| Toxoplasma gondii |
ToxoDB, N/A |
| Theileria parva |
TIGR, ftp://ftp.tigr.org/pub/data/Eukaryotic_Projects/t_parva/annotation_dbs/ |
| Saccharomyces cerevisiae S288C |
SGD, ftp://genome-ftp.stanford.edu/pub/yeast/sequence/genomic_sequence/orf_protein/orf_trans_all.fasta.gz |
| Schizosaccharomyces pombe |
Sanger, ftp://ftp.sanger.ac.uk/pub/yeast/pombe/Protein_data/pompep |
| Yarrowia lipolytica CLIB99 |
Genolevures, http://cbi.labri.u-bordeaux.fr/Genolevures/raw/seq/Y_lipolytica.rc2.aa |
| Kluyveromyces lactis CLIB210 |
Genolevures, http://cbi.labri.u-bordeaux.fr/Genolevures/raw/seq/K_lactis.rc2.aa |
| Debaryomyces hansenii CBS767 |
Genolevures, http://cbi.labri.u-bordeaux.fr/Genolevures/raw/seq/D_hansenii.rc2.aa |
| Candida glabrate CBS138 |
Genolevures, http://cbi.labri.u-bordeaux.fr/Genolevures/raw/seq/C_glabrata.rc2.aa |
| Encephalitozoon cuniculi |
GenBank, ftp://ftp.ncbi.nih.gov/genomes/Encephalitozoon_cuniculi/*.faa |
| Cryptococcus neoformans |
TIGR, ftp://ftp.tigr.org/pub/data/Eukaryotic_Projects/c_neoformans/annotation_dbs/CNA1.pep |
| Ashbya gossypii |
AGD, http://agd.unibas.ch/Ashbya_gossypii/downloads/AGD_ORF_translations_r2_1.fas |
| Neurospora crassa OR74A |
WI, ftp://www-genome.wi.mit.edu/pub/annotation/N_crassa/release7/neurospora_crassa_7_proteins.fasta.gz |
| Cyanodioschyzon merolae 10D |
UTOKYO, http://merolae.biol.s.u-tokyo.ac.jp/download/cds.fasta.txt |
| Thalassiosira pseudonana |
JGI, ftp://ftp.jgi-psf.org/pub/JGI_data/Diatom/thaps1/thaps1Prots.fasta.gz |
| Arabidopsis thaliana |
TIGR, ftp://ftp.tigr.org/pub/data/a_thaliana/ath1/SEQUENCES/ATH1.pep.gz |
| Oryza sativa |
TIGR, ftp://ftp.tigr.org/pub/data/Eukaryotic_Projects/o_sativa/annotation_dbs/BAC_PAC_clones/OSA1.pep |
| Caenorhabditis elegans |
WORMBASE, ftp://ftp.wormbase.org/pub/wormbase/data_freezes/WS140/acedb/wormpep140.tar.gz |
| Caenorhabditis briggsae |
SANGER, ftp://ftp.sanger.ac.uk/pub/wormbase/cbriggsae/cb25.agp8/brigpep2.pep.gz |
| Drosophila melanogaster |
ensembl, ftp://ftp.ensembl.org/pub/fly-30.3d/data/fasta/pep/Drosophila_melanogaster.BDGP3.2.1.apr.pep.fa.gz |
| Anopheles gambiae PEST |
ensembl, ftp://ftp.ensembl.org/pub/anopheles-30.2e/data/fasta/pep/Anopheles_gambiae.MOZ2a.apr.pep.fa.gz |
| Ciona intestinalis |
JGI, ftp://ftp.jgi-psf.org/pub/JGI_data/Ciona/v1.0/ciona.prot.fasta.gz |
| Fugu rubripes |
ensembl, ftp://ftp.ensembl.org/pub/fugu-30.2e/data/fasta/pep/Fugu_rubripes.FUGU2.apr.pep.fa.gz |
| Tetraodon nigroviridis |
ensembl, ftp://ftp.ensembl.org/pub/tetraodon-30.1b/data/fasta/pep/Tetraodon_nigroviridis.TETRAODON7.apr.pep.fa.gz |
| Danio rerio |
ensembl, ftp://ftp.ensembl.org/pub/zebrafish-30.4c/data/fasta/pep/Danio_rerio.ZFISH4.apr.pep.fa.gz |
| Homo sapiens |
ensembl, ftp://ftp.ensembl.org/pub/human-30.35c/data/fasta/pep/Homo_sapiens.NCBI35.apr.pep.fa.gz |
| Mus musculus |
ensembl, ftp://ftp.ensembl.org/pub/mouse-30.33f/data/fasta/pep/Mus_musculus.NCBIM33.apr.pep.fa.gz |
| Rattus norvegicus |
ensembl, ftp://ftp.ensembl.org/pub/rat-30.34/data/fasta/pep/Rattus_norvegicus.RGSC3.4.apr.pep.fa.gz |
| Gallus gallus |
ensembl, ftp://ftp.ensembl.org/pub/chicken-30.1f/data/fasta/pep/Gallus_gallus.WASHUC1.apr.pep.fa.gz |
