Sample BLAST+ 2.2.28 XML file using non-NCBI identifiers for DB.

Using a custom BLAST database made from a FASTA file with entries:

>chrI gi|240254421|ref|NC_003070.9| Arabidopsis thaliana chromosome 1, complete sequence
>chrII gi|240254678|ref|NC_003071.7| Arabidopsis thaliana chromosome 2, complete sequence
>chrIII gi|240255695|ref|NC_003074.8| Arabidopsis thaliana chromosome 3, complete sequence
>chrIV gi|240256243|ref|NC_003075.7| Arabidopsis thaliana chromosome 4, complete sequence
>chrV gi|240256493|ref|NC_003076.8| Arabidopsis thaliana chromosome 5, complete sequence

Notice this does NOT use the NCBI naming convention (although their original
identifiers are preserved in the descriptions). The example used this chunk
from chrIII as the query:

>chunk_of_plant
GATGTTCAATACTGTTTCCAACAAAAAGATTGTTGTCCTCGAGTTCGCCTTCAAGAAAGACACGAGAGAG
ACTCCAGCCATTGACGTCTGCAAAGGTTTGTTAGGAGACAAGGCCCGAATCAGCATCTATGATCCACAAG
TCACGGAAGAACAAATCCAAAGAGACTTAACCATGAACACATTCGACTGGGACCATCCACTTCACCTCCA
ACCCATGAGTCCAACCACTGTGAAACAAGTCTCAGTTGCTTGGGACGCTTACGCTGCCACCAAAGACGCC
CACGGAATCTGCTTGTTAACCGAGTGGGACGAGTATAAGACGCTTGACTATGAGCGGATTTTTGAAAACA
TGCAGAAACCAGCGTTTGTCTTCGATGGCAGAAATGTTTTTGATGCAGAGAAGCTGAGGAAGATAGGGTT
TATTGTTTACTCTATTGGTAAGCCGTTGGACCAGTGGCACATGCCTGCTCTTGCTTAGCTCAGACTCTTT
GCCCTTTCTCAAGATTTGGATTGTTTTTCTCTCTGTTGCTTATATCAAATAATTTGTTCTGTTTCTTCTT
GACGAGATATTTTCCTATACTTATTATGTTGGTTAGAACAAGAGACTAGGTTTGGTTATTATTGCTAACT

The XML output has these (new) generic identifiers in it:

  <Hit_id>gnl|BL_ORD_ID|2</Hit_id>
  <Hit_def>chrIII gi|240255695|ref|NC_003074.8| Arabidopsis thaliana chromosome 3, complete sequence</Hit_def>
  <Hit_accession>2</Hit_accession>
  <Hit_len>23459830</Hit_len>

The blastn tabular output gives the sseqid as 'chrIII' as expected,
so our BLAST XML to tabular script needs updating...
Update BLAST XML to tabular for gnl|BL_ORD_ID|nnn style output