MATPredict · mating-type report

AcampestrisIBT28561

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 02:16 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-1high confidence

Called loci 1

MAT1-1 MAT family · Ascomycota

high confidence
Gene order of the MAT1-1 locus on MSFM01000001MAT1-1 locus: genes from left to right on MSFM01000001, 238,083 to 250,415: SLA2 (conserved flank, plus strand); MAT1-1-1 (core MAT gene, minus strand); MAT1-1-3 (core MAT gene, plus strand); MAT1-2-1 (core MAT gene, plus strand); APN2 (conserved flank, minus strand); COX13 (conserved flank, plus strand).238 kb240 kb242 kb244 kb246 kb248 kb250 kb← 237.5 kb more to contig endcalled locusSLA2: conserved flank, 238,083–241,983 (+), identity 88.8%, search hit onlySLA2MAT1-1-1: core MAT gene, 244,122–245,271 (-), identity 50.0%, search hit onlyMAT1-1-1MAT1-1-3: core MAT gene, 245,833–245,955 (+), identity 34.146%, search hit onlyMAT1-1-3MAT1-2-1: core MAT gene, 245,875–246,279 (+), identity 66.7%, search hit onlyMAT1-2-1APN2: conserved flank, 247,229–249,310 (-), identity 86.4%, search hit onlyAPN2COX13: conserved flank, 249,626–250,415 (+), identity 73.7%, search hit onlyCOX13
Gene order on MSFM01000001. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on MSFM01000001, 237,467 to 251,031P168DRAFT_285952 235,052-237,630 (+): Pleckstrin homology domain | domain-containing proteinP168DRAFT_285952P168DRAFT_285953 237,794-242,117 (+): cytoskeleton assembly control protein Sla2P168DRAFT_285953P168DRAFT_1806 243,467-243,984 (-): hypothetical proteinP168DRAFT_1806P168DRAFT_313902 244,122-245,271 (-): mating-type alpha-box proteinP168DRAFT_313902P168DRAFT_285957 245,769-246,418 (+): hypothetical proteinP168DRAFT_285957P168DRAFT_285959 246,774-249,354 (-): DNA lyase Apn2P168DRAFT_285959P168DRAFT_300586 249,626-250,521 (+): putative cytochrome c oxidase subunit VIaP168DRAFT_300586P168DRAFT_308029 250,755-253,460 (-): anaphase-promoting complex proteinP168DRAFT_308029
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
MSFM01000001:238,083–250,415 · 12.3 kb
Own genes
MSFM01000001:238,083–250,415 · 12.3 kb
Locus
Genes of both idiomorphs at one locus.
Genes modelled
5 of 6 gene hits
Nearest contig end
238.1 kb
Region (samtools)
MSFM01000001:238083-250415
Idiomorph scores
  • MAT1-1 250.0
  • MAT1-2 72.0

Margin over the next idiomorph: 178.0

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

Overlapping hits resolved

Where genes of two idiomorphs hit the same place, the stronger hit was kept.

keptidentity %set asideidentity %overlap %basis
MAT1-2-166.7MAT1-1-334.165.9higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
SLA2conserved flankhit onlyDIAMOND, proteome88.8cov 100.0%< 1e-1801,538 bits238,083–241,983 +–107463_unknown-1_MAT_MAT1-2P168DRAFT_285953
MAT1-1-1core MAThit onlyDIAMOND, proteome50.0cov 70.6%6.6e-83250 bits244,122–245,271 -–162425_fgsc-a4_MAT_combinedP168DRAFT_313902
MAT1-1-3core MAThit onlytblastn34.1cov 25.0%2.7e-0234 bits245,833–245,955 +–5127_mo44_MAT_MAT1-1P168DRAFT_285957
MAT1-2-1core MAThit onlyDIAMOND, proteome66.7cov 10.7%2.4e-1872 bits245,875–246,279 +–199306_silveira_MAT_MAT1-2P168DRAFT_285957
APN2conserved flankhit onlyDIAMOND, proteome86.4cov 36.7%< 1e-180889 bits247,229–249,310 -–2903220_liq80xsp_MAT_combinedP168DRAFT_285959
COX13conserved flankhit onlyDIAMOND, proteome73.7cov 67.9%3.2e-62180 bits249,626–250,415 +–199306_rmscc1040_MAT_MAT1-1P168DRAFT_300586

Withheld candidate loci 1

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 (1).

Show the 1 withheld locus

Withheld loci (1)

familylocationidiomorph genesmodelledreason
MATMSFM01000005:1,684,086–1,685,742MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
AcampestrisIBT28561.genome.fasta
Assembly
62 contigs · 28.3 Mb · N50 1.7 Mb
Genome SHA-256
4414b5246a1e99b4fc85724209df6af9058c99f8ed39d8a43bbf91355b9e53ae
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': 1131492, 'routing_taxid_rank': 'family', 'flags': ['identical_to_reference'], '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 1131492', 'routed_by': 'family taxid 1131492 (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
2026-11-07T02:14:59Z
Run time
64 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