MATPredict · mating-type report

EafricanusCBS136260

MAT locus above the FungiDB annotation (gene by gene)

organism not recorded

Run by MATPredict 0.8.1 (v0.8.1, 3a62e6302b) · database 86f18d232e4f · local NCBI taxonomy snapshot 2026-10-01 · rendered 2026-11-07 02:20 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-1medium confidence

Called loci 1

MAT1-1 MAT family · Ascomycota

medium confidence
Gene order of the MAT1-1 locus on LGUA01000486MAT1-1 locus: genes from left to right on LGUA01000486, 517 to 8,483: MAT1-1-4 (core MAT gene, minus strand); COX13 (conserved flank, minus strand); APN2 (conserved flank, plus strand).2 kb4 kb6 kb8 kbcontig endcalled locusMAT1-1-4: core MAT gene, 517–1,903 (-), identity 44.3%, search hit onlyMAT1-1-4COX13: conserved flank, 4,320–5,758 (-), identity 77.8%, search hit onlyCOX13APN2: conserved flank, 6,470–8,483 (+), identity 75.0%, search hit onlyAPN2
Gene order on LGUA01000486. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on LGUA01000486, 1 to 8,881ACJ72_04272 517-1,903 (-): unspecified productACJ72_04272ACJ72_04273 3,145-4,202 (-): PAT complex subunit Asterix | domain-containing proteinACJ72_04273ACJ72_04274 4,320-5,758 (-): Cytochrome c oxidase subunit VIa | domain-containing proteinACJ72_04274ACJ72_04275 6,470-8,483 (+): DNA-(apurinic or apyrimidinic site) endonuclease 2ACJ72_04275
FungiDB release 71 annotation of the same window: gene models from the GFF (filled = CDS, pale = UTR exon, line = intron, arrow = strand). Green genes overlap a MATPredict gene on the same strand; grey genes do not. Click a gene to open it on fungidb.org.
  • core MAT gene
  • conserved flank
  • search hit only
Location
LGUA01000486:517–8,483 · 8.0 kb
Own genes
LGUA01000486:517–8,483 · 8.0 kb
Locus
Provisional: the call only tied the admission bar, or came from the relaxed pass.
Genes modelled
3 of 3 gene hits
Nearest contig end
516 bp
Region (samtools)
LGUA01000486:517-8483
Idiomorph scores
  • MAT1-1 148.0

No other idiomorph scored.

Score: bitscore of the best core-gene hit for each idiomorph.

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
MAT1-1-4core MAThit onlyDIAMOND, proteome44.3cov 70.3%4.6e-46148 bits517–1,903 -–199306_rmscc1040_MAT_MAT1-1ACJ72_04272
COX13conserved flankhit onlyDIAMOND, proteome77.8cov 73.3%3.3e-45139 bits4,320–5,758 -–5501_rs_MAT_MAT1-2ACJ72_04274
APN2conserved flankhit onlyDIAMOND, proteome75.0cov 30.0%6.4e-230645 bits6,470–8,483 +–2903220_liq80xsp_MAT_combinedACJ72_04275
MAT1-1-1expected, not found–
SLA2expected, not found–

Withheld candidate loci 4

Places with some MAT-gene evidence that did not pass a quality gate. Most genomes have several. They are listed so a known locus can be checked against them, not because they are likely calls.

Reasons: too few of the family's genes found (4).

Show the 4 withheld loci

Withheld loci (4)

familylocationidiomorph genesmodelledreason
MATLGUA01000047:40,947–43,310MAT1-2MAT1-2-11too few of the family's genes found
MATLGUA01000159:4,235–26,468MAT1-1MAT1-2-1, MAT1-1-32too few of the family's genes found
MATLGUA01001295:3,024–6,664undeterminedSLA21too few of the family's genes found
MATLGUA01001520:3,858–5,135MAT1-1MAT1-1-11too few of the family's genes found

Provenance

Genome file
EafricanusCBS136260.genome.fasta
Assembly
4,444 contigs · 29.7 Mb · N50 13.8 kb
Genome SHA-256
9a45516ebd9791ce1dbfa6446416582bd7856391780ae9e8aa26f74456aa7050
MATPredict
0.8.1 (v0.8.1, 3a62e6302b)
Database
86f18d232e4fe95d · 185 records
Taxonomy
local NCBI taxonomy snapshot 2026-10-01
Parameters
phylum=Ascomycota, phylum_guess={'requested': 'auto', 'status': 'ok', 'usable': True, 'reason': None, 'phylum': 'Ascomycota', 'phylum_taxid': 4890, 'deepest_rank': 'species', 'routing_taxid': 299071, 'routing_taxid_rank': 'family', 'flags': [], 'gmg_version': 'gmg 0.3.2 (66055154a)', 'index': 'bfd-reps-2026.10.5-s20000.gmgi', 'index_sha256': '0f319567f1cab17643e1daf7ffdc0e3b312bd43913e351568108d67a4a19702c', 'index_spec': 'bfd-reps-2026.10.5-s20000.gmgi', 'note': 'GmG called phylum Ascomycota', 'action': 'routed', 'weak_call_accepted': False, 'genetic_code': 1, 'genetic_code_from': 'family taxid 299071', 'routed_by': 'family taxid 299071 (lineage)'}, genetic_code=1, min_hits=2, require_core_role=True, max_polished_clusters_per_family=6, polish_strong_identity=50.0, polish_core_pair=True, partial_core_policy=off, homothallic_policy=off, confidence_cap_policy=off, cross_family_policy=off, fallback_after_withheld_policy=off, strong_single_gene_policy=off, scoped_roster_policy=off, scoped_roster=off: BGL1,GAP1 not searched, supported_min_bitscore=33.0
Run started
2026-11-07T02:19:50Z
Run time
56 s
Files
detection_report.yaml, detected_loci.gff3

Cite MATPredict as given in CITATION.cff at github.com/stajichlab/MATPredict. The reference records named in the gene tables are curated database entries; each record's metadata cites its source publication.

How to read this report

Idiomorph
The form of the mating-type locus a strain carries (for example MAT1-1 or MAT1-2, Plus or Minus). Basidiomycota HD and PR alleles are named after the reference they match.
High confidence
Every expected core MAT gene was found and modelled, with a conserved flanking gene where the family has one, on one contig.
Medium confidence
The core genes were found, but a gene could not be modelled, no conserved flank was found, or the locus is split (one step down).
Low confidence
A single isolated gene hit, or no core MAT gene.
Model status
Gene model: the reference protein was aligned to the genome to build the gene (exonerate, miniprot). Models differ: the two tools disagree on the structure; the alternate model is shown. Hit only: a search hit with no model, weaker evidence.
Identity
Percent amino-acid identity between the gene (or hit) and the closest reference protein.
Reference record
The curated database record whose protein matched best. Each record's metadata cites the publication or deposit it comes from.

Limits