MATPredict · mating-type report

GtriticiR3-111a-1

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 02:54 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-2high confidence

Called loci 1

MAT1-2 MAT family · Ascomycota

high confidence
Gene order of the MAT1-2 locus on GL385396MAT1-2 locus: genes from left to right on GL385396, 6,307,820 to 6,323,876: COX13 (conserved flank, plus strand); SLA2 (conserved flank, plus strand); MAT1-1-3 (core MAT gene, plus strand); MAT1-2-1 (core MAT gene, plus strand); APN2 (conserved flank, minus strand).6,310 kb6,315 kb6,320 kb1,322.1 kb more to contig end →called locusCOX13: conserved flank, 6,307,820–6,308,500 (+), identity 61.9%, search hit onlyCOX13SLA2: conserved flank, 6,312,873–6,316,179 (+), identity 82.2%, search hit onlySLA2MAT1-1-3: core MAT gene, 6,318,630–6,320,064 (+), identity 32.4%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 6,318,630–6,320,064 (+), identity 58.1%, search hit onlyMAT1-2-1APN2: conserved flank, 6,321,991–6,323,876 (-), identity 81.8%, search hit onlyAPN2
Gene order on GL385396. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on GL385396, 6,307,019 to 6,324,679GGTG_04691 6,304,687-6,307,510 (+): RING-9 proteinGGTG_04691GGTG_04692 6,307,820-6,308,500 (+): cytochrome c oxidase subunit VIaGGTG_04692GGTG_04693 6,308,797-6,309,850 (+): 40S ribosomal protein S9GGTG_04693GGTG_04694 6,309,939-6,310,976 (-): unspecified productGGTG_04694GGTG_04695 6,311,285-6,312,184 (+): Kinetochore protein Sos7 | domain-containing proteinGGTG_04695GGTG_04696 6,312,873-6,316,179 (+): cytoskeleton assembly control protein Sla2GGTG_04696GGTG_04697 6,318,166-6,320,451 (+): HMG (high mobility group) box | domain-containing proteinGGTG_04697GGTG_04698 6,320,636-6,323,978 (-): DNA-(apurinic or apyrimidinic site) lyase 2GGTG_04698GGTG_04699 6,324,404-6,327,368 (+): anaphase-promoting complex proteinGGTG_04699
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
  • MAT1-1-3 is a weak hit to the other idiomorph's gene and was not counted against the call.
Location
GL385396:6,307,820–6,323,876 · 16.1 kb
Own genes
GL385396:6,307,820–6,323,876 · 16.1 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
4 of 5 gene hits
Nearest contig end
1.3 Mb
Region (samtools)
GL385396:6307820-6323876
Idiomorph scores
  • MAT1-2 106.0

Margin over the set-aside MAT1-1-3 hit: 25.7 identity points (the narrowest overlap resolution below).

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
MAT1-2-158.1MAT1-1-332.4100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
COX13conserved flankhit onlyDIAMOND, proteome61.9cov 83.7%7.2e-59172 bits6,307,820–6,308,500 +–5501_rs_MAT_MAT1-2GGTG_04692
SLA2conserved flankhit onlyDIAMOND, proteome82.2cov 100.0%< 1e-1801,404 bits6,312,873–6,316,179 +–27337_vdls-17_MAT_MAT1-2GGTG_04696
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome32.4cov 41.1%7.0e-0948 bits6,318,630–6,320,064 +–230073_uamh-1363_MAT_MAT1-1GGTG_04697
MAT1-2-1core MAThit onlyDIAMOND, proteome58.1cov 22.5%8.4e-28106 bits6,318,630–6,320,064 +–5141_unknown-1_MAT_MAT1-2GGTG_04697
APN2conserved flankhit onlyDIAMOND, proteome81.8cov 36.7%4.8e-223625 bits6,321,991–6,323,876 -–2903220_liq80xsp_MAT_combinedGGTG_04698

Withheld candidate loci 2

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 (2).

Show the 2 withheld loci

Withheld loci (2)

familylocationidiomorph genesmodelledreason
MATGL385396:6,045,476–6,048,768MAT1-2MAT1-2-11too few of the family's genes found
MATGL385399:842,102–845,168MAT1-1MAT1-1-1, MAT1-1-21too few of the family's genes found

Provenance

Genome file
GtriticiR3-111a-1.genome.fasta
Assembly
517 contigs · 43.8 Mb · N50 6.7 Mb
Genome SHA-256
ef751f086bc0236e2cb45d804ef555bde89e91b3e62578a79e0836e983a7624d
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': 'genus', 'routing_taxid': 81093, 'routing_taxid_rank': 'family', 'flags': ['high_N'], '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 81093', 'routed_by': 'family taxid 81093 (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
2026-11-07T02:52:40Z
Run time
123 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