ftp://ftp.ncbi.nlm.nih.gov/blast/db/FASTA/
| Name | Last modified | Size |
|---|---|---|
| nt.gz | 2023-05-16 18:01 | 277 G |
| nt | 2023-05-16 12:01 | 1.06 T |
| filteredNT |
93,245,213 sequences
ftp://ftp.ncbi.nih.gov/pub/taxonomy/new_taxdump/new_taxdump.tar.gz
125 M new_taxdump.tar.gz
| file size | file name | lines |
|---|---|---|
| 19 M | citations.dmp | 57,135 |
| 4.3 M | delnodes.dmp | 469,891 |
| 452 | division.dmp | 12 |
| 34 K | excludedfromtype.dmp | 483 |
| 673 M | fullnamelineage.dmp | 2,511,766 |
| 4.9 K | gencode.dmp | 28 |
| 5.6 M | host.dmp | 207,017 |
| 667 K | images.dmp | 4,562 |
| 1.3 M | merged.dmp | 72,443 |
| 207 M | names.dmp | 3,614,948 |
| 226 M | nodes.dmp | 2,511,766 |
| 312 M | rankedlineage.dmp | 2,511,766 |
| 285 M | taxidlineage.dmp | 2,511,766 |
| 24 M | typematerial.dmp | 381,647 |
| 3.0 K | typeoftype.dmp | 38 |
| . | total | 14,855,268 |
ftp://ftp.ncbi.nih.gov/pub/taxonomy/accession2taxid/
| records | file name | file size (compressed) |
|---|---|---|
| 107,821,989 | dead_wgs.accession2taxid.gz | 749 M |
| 39,408,003 | dead_nucl.accession2taxid.gz | 282 M |
| 146,110,304 | dead_prot.accession2taxid.gz | 1.1 G |
| 330,564 | nucl_wgs.accession2taxid.EXTRA.gz | 1.6 M |
| 656,650,780 | nucl_wgs.accession2taxid.gz | 4.5 G |
| 315,533,471 | nucl_gb.accession2taxid.gz | 2.2 G |
| 802,469 | pdb.accession2taxid.gz | 5.4 M |
| 5,242,814,608 | prot.accession2taxid.gz | 13 G |
| Database | file size | records in accession_taxid |
|---|---|---|
| protein_taxonomy.db | 365 G | 5,242,861,403 |
| taxonomy.db | 65 G | 972,514,757 |
| dead_taxonomy.db | 20 G | 293,340,296 |
- Number of taxonomy ids that are in black list is 1,071,712.
- Number of blacklisted sequences is 11,283,515 sequences.
Sequences from a given black list of sources were removed. This list of sources, number of associated taxonomic IDs and number of removed sequences is given below.
| blackListTaxonomyName | taxids | removed sequences |
|---|---|---|
| unclassified | 983,330 | 2,993,613 |
| phage | 17,399 | 23,927 |
| other sequence | 636 | 22,0257 |
| uncultured | 26,079 | 7,763,334 |
| unidentified | 1,874 | 125,302 |
| vector | 16,928 | 29,731 |
| unknown | 351 | 2,157 |
| unidentified;vector | 2 | 368 |
| environmental sample | 24,830 | 87,063 |
| unspecified | 89 | 33,887 |
| phage;vector | 17 | 17 |
| uncultured;phage | 177 | 3858 |
| uncultured | 5 | 5 |
| total | 1,071,712 | 11,283,515 |
The number of sequences in this filtered-nt release is 81,961,699