PostreatusPC9 – MATPredict report

Result

Mating type

undetermined: MAT gene without flanking genes, high confidence, 9.0 kb on JACETU010000002. Gene order: MIP1 · HD1 · Z · Y · HD2 · beta_fg.

Called loci 1

undetermined Aalpha family · Basidiomycota

high confidence

Gene order on JACETU010000002. Scroll sideways to see the whole figure.

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
gene model
search hit only

Idiomorph undetermined: the evidence for two idiomorphs is tied or too close to call.
The same genes also match: Basidiomycota:HD.

Location: JACETU010000002:1,659,924–1,668,958 · 9.0 kb
Own genes: JACETU010000002:1,659,924–1,668,958 · 9.0 kb
Locus: A MAT gene with no flanking gene beside it; not a full locus.
Genes modelled: 4 of 6 gene hits
Nearest contig end: 1.7 Mb
Region (samtools): JACETU010000002:1659924-1668958

Subloci

sublocus	allele	location	genes	completeness
Aalpha	undetermined	JACETU010000002:1,659,924–1,668,958	Y, Z	complete
HD	undetermined	JACETU010000002:1,659,924–1,668,958	HD1, HD2, MIP1, beta_fg	complete

Gene evidence

Gene	Role	Model	Identity %	E-value	Position (strand)	Exons	Reference record	FungiDB gene
MIP1	conserved flank	hit onlyDIAMOND, proteome	76.2cov 100.0%	< 1e-1801,052 bits	1,659,924–1,662,451 +	–	90004_unknown_HD_A1	PC9H_003367 OCT1
HD1	core MAT	hit onlyDIAMOND, proteome	39.8cov 37.8%	1.5e-47170 bits	1,663,035–1,665,227 -	–	90004_unknown_HD_A1	PC9H_003368
Z	core MAT	gene modelexonerate	31.7cov 15.5%	9.1e-1992 bits	1,664,802–1,665,233 -	1	5334_h4-8_Aalpha_4	PC9H_003368
Y	core MAT	hit onlyDIAMOND, proteome	29.8cov 18.3%	5.0e-1673 bits	1,665,392–1,667,448 +	–	5334_h4-8_Aalpha_4	PC9H_003369
HD2	core MAT	hit onlyDIAMOND, proteome	58.2cov 9.1%	1.4e-27110 bits	1,665,392–1,667,448 +	–	5346_a43-b43-okayama-7_HD_A43	PC9H_003369
beta_fg	conserved flank	hit onlyDIAMOND, proteome	61.8cov 78.6%	4.9e-67200 bits	1,667,872–1,668,958 -	–	192523_h97_HD_A1	PC9H_003370

What was searched

Routing: By taxonomy. The genome's taxonomy falls inside a curated family's scope; only those families were searched.
Families searched: Basidiomycota:HD, Basidiomycota:PR, Basidiomycota:Aalpha, Basidiomycota:Abeta, Basidiomycota:Balpha, Basidiomycota:Bbeta
Genetic code: 1
Taxonomy: local NCBI taxonomy snapshot 2026-10-01

Families searched but not called

family	reason	best % of genes found	genes found
Basidiomycota:PR	best cluster carried 1 modelled gene(s), below the 2 required to report a locus; only 1 of its genes could be modelled	50.0	pheromone_receptor, fungal_mating_type_pheromone
Basidiomycota:Abeta	no reference protein for this family is in the search set (none curated, or all withheld)	0.0	–
Basidiomycota:Balpha	best cluster carried 1 modelled gene(s), below the 2 required to report a locus; only 1 of its genes could be modelled	100.0	bar3
Basidiomycota:Bbeta	best cluster carried 1 modelled gene(s), below the 2 required to report a locus; only 1 of its genes could be modelled	25.0	bbr2

Pheromone-receptor arrays

Receptor arrays occur for both mating and non-mating STE3-like receptors (the study found arrays holding paralogs beside the mating receptors in Coprinopsis cinerea and Schizophyllum commune), so array membership does not establish that a locus is a mating receptor. receptor_array_support is a flag on the evidence behind an array; it never changes a call, its confidence or its verification label. receptor_cassette_* fields describe pheromone-precursor cassette structure (2 or more strict-CAAX ORFs within 5 kb of a receptor locus; class C when that many of those ORFs also carry tblastn precursor homology). They are descriptive only: the CAAX scan is also what admits a PR call, so cassettes are circular as confirmation; own-species curated precursors are a self-hit for class C; tandem receptors may be merged into one locus. They never change a call, tier, label, confidence or count.

array	location	loci	support	reasons
Basidiomycota:PR:JACETU010000001:422711-423941	JACETU010000001:422,711–423,941	1	unsupported	a single receptor locus; no pheromone-precursor homology hit; 0 strict-CAAX pheromone ORFs
Basidiomycota:PR:JACETU010000005:1667745-1670166	JACETU010000005:1,667,745–1,670,166	1	unsupported	a single receptor locus; no pheromone-precursor homology hit; 0 strict-CAAX pheromone ORFs
Basidiomycota:PR:JACETU010000009:1843780-1906347	JACETU010000009:1,843,780–1,906,347	6	supported	array of 2 or more receptor loci; a pheromone-precursor homology hit

Withheld candidate loci 37

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: fewer than 2 genes could be modelled (31); too few of the family's genes found (6).

Show the 37 withheld loci

Withheld loci (37)

family	location	idiomorph	genes	modelled	reason
Balpha	JACETU010000001:422,711–423,941	undetermined	bar3	1	fewer than 2 genes could be modelled
Balpha	JACETU010000001:875,340–875,438	undetermined	bap3-3	0	fewer than 2 genes could be modelled
HD	JACETU010000001:2,525,326–2,525,433	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000001:2,812,518–2,818,927	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000001:3,595,501–3,595,827	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000002:2,012,543–2,032,113	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000002:3,562,558–3,562,668	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000002:3,976,993–3,977,121	undetermined	HD1	0	fewer than 2 genes could be modelled
PR	JACETU010000002:4,063,822–4,066,083	undetermined	pheromone_B43, fungal_mating_type_pheromone	0	fewer than 2 genes could be modelled
HD	JACETU010000005:1,436,871–1,438,208	undetermined	HD2	1	fewer than 2 genes could be modelled
Balpha	JACETU010000005:1,667,745–1,670,166	undetermined	bar3	1	fewer than 2 genes could be modelled
Balpha	JACETU010000005:1,951,170–1,951,268	undetermined	bap3-3	0	fewer than 2 genes could be modelled
HD	JACETU010000008:1,445,198–1,445,359	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000008:2,327,408–2,336,181	undetermined	HD1	0	fewer than 2 genes could be modelled
Aalpha	JACETU010000009:388,806–388,958	undetermined	Z	0	fewer than 2 genes could be modelled
Balpha	JACETU010000009:1,843,780–1,871,343	undetermined	bar3, bap3-1, bap3-3	1	fewer than 2 genes could be modelled
PR	JACETU010000009:1,843,780–1,871,343	undetermined	pheromone_receptor, fungal_mating_type_pheromone	1	fewer than 2 genes could be modelled
Bbeta	JACETU010000009:1,843,780–1,871,343	undetermined	bbr2	1	fewer than 2 genes could be modelled
Balpha	JACETU010000009:1,901,420–1,906,347	undetermined	bar3	1	fewer than 2 genes could be modelled
HD	JACETU010000007:137,356–157,824	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000007:371,606–371,815	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000007:604,471–624,166	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000007:1,634,045–1,635,306	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000007:2,495,872–2,496,030	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000007:3,228,215–3,228,304	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000003:1,415,914–1,416,084	undetermined	HD1	0	fewer than 2 genes could be modelled
Balpha	JACETU010000003:2,635,811–2,635,906	undetermined	bap3-3	0	fewer than 2 genes could be modelled
HD	JACETU010000003:2,867,839–2,868,027	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000006:1,217,064–1,217,291	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000004:1,580,589–1,589,116	undetermined	HD1	0	fewer than 2 genes could be modelled
HD	JACETU010000004:2,526,240–2,526,467	undetermined	HD1	0	fewer than 2 genes could be modelled
PR	JACETU010000001:422,711–423,941	undetermined	pheromone_receptor	1	too few of the family's genes found
PR	JACETU010000005:1,667,745–1,670,166	undetermined	pheromone_receptor	1	too few of the family's genes found
Bbeta	JACETU010000005:1,667,745–1,670,166	undetermined	bbr2	1	too few of the family's genes found
PR	JACETU010000008:657,161–657,718	undetermined	pheromone_receptor	1	too few of the family's genes found
PR	JACETU010000009:1,901,420–1,906,347	undetermined	pheromone_receptor	1	too few of the family's genes found
Bbeta	JACETU010000009:1,901,420–1,906,347	undetermined	bbr2	1	too few of the family's genes found

Provenance

Genome file: PostreatusPC9.genome.fasta
Assembly: 17 contigs · 35.0 Mb · N50 3.5 Mb
Genome SHA-256: db58cd61ff0696fa8e10ab844082aa15d5c8e8f867a796a9b0f7f0691248fe1c
MATPredict: 0.8.1 (v0.8.1, 3a62e6302b)
Database: 86f18d232e4fe95d · 185 records
Taxonomy: local NCBI taxonomy snapshot 2026-10-01
Parameters: phylum=Basidiomycota, phylum_guess={'requested': 'auto', 'status': 'ok', 'usable': True, 'reason': None, 'phylum': 'Basidiomycota', 'phylum_taxid': 5204, 'deepest_rank': 'genus', 'routing_taxid': 104366, '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 Basidiomycota', 'action': 'routed', 'weak_call_accepted': False, 'genetic_code': 1, 'genetic_code_from': 'family taxid 104366', 'routed_by': 'family taxid 104366 (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, supported_min_bitscore=33.0
Run started: 2026-11-07T02:36:17Z
Run time: 86 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

MATPredict reads an assembly; it is not a mating assay. Two idiomorphs in one assembly can come from a homothallic species, a mixed culture or a merged diploid assembly.
Fragmented assemblies can split a locus or lose its flanking genes; an uncalled genome is weak evidence of absence.
Lineages with no curated record are searched with the whole phylum's references; family labels there are less reliable.