MATPredict · mating-type report

NdiscretaFGSC8579

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 02:40 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 NdisFGSC8579_SC002MAT1-1 locus: genes from left to right on NdisFGSC8579_SC002, 1,667,552 to 1,685,056: COX13 (conserved flank, minus strand); APN2 (conserved flank, plus strand); MAT1-1-3 (core MAT gene, minus strand); MAT1-2-1 (core MAT gene, minus strand); MAT1-1-2 (core MAT gene, plus strand); MAT1-1-1 (core MAT gene, plus strand); SLA2 (conserved flank, minus strand).1,670 kb1,675 kb1,680 kb1,685 kb1,571.9 kb more to contig end →called locusCOX13: conserved flank, 1,667,552–1,668,472 (-), identity 72.6%, search hit onlyCOX13APN2: conserved flank, 1,669,535–1,671,524 (+), identity 84.1%, search hit onlyAPN2MAT1-1-3: core MAT gene, 1,673,159–1,674,295 (-), identity 90.4%, search hit onlyMAT1-1-3MAT1-2-1: core MAT gene, 1,673,483–1,673,620 (-), identity 32.609%, search hit onlyMAT1-2-1 (lost to MAT1-1-3)MAT1-1-2: core MAT gene, 1,675,049–1,676,440 (+), identity 84.9%, search hit onlyMAT1-1-2MAT1-1-1: core MAT gene, 1,676,843–1,677,832 (+), identity 92.1%, search hit onlyMAT1-1-1SLA2: conserved flank, 1,681,715–1,685,056 (-), identity 80.2%, search hit onlySLA2
Gene order on NdisFGSC8579_SC002. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on NdisFGSC8579_SC002, 1,666,678 to 1,685,931NEUDI_91750 1,664,439-1,667,597 (+): Anaphase-promoting complex (APC), subunit 5NEUDI_91750NEUDI_136650 1,667,552-1,668,472 (-): Cytochrome c oxidase, subunit VIa/COX13NEUDI_136650NEUDI_91756 1,669,286-1,671,733 (+): Apurinic/apyrimidinic endonuclease and related enzymesNEUDI_91756NEUDI_21172 1,673,159-1,674,295 (-): HMG-box transcription factorNEUDI_21172NEUDI_53545 1,675,049-1,676,440 (+): Mating type protein 1-1-2 of unknown function | domain-containing proteinNEUDI_53545NEUDI_91759 1,676,759-1,678,140 (+): Mating-type protein MAT alpha 1 HMG-box | domain-containing proteinNEUDI_91759NEUDI_108289 1,680,267-1,680,800 (+): unspecified productNEUDI_108289NEUDI_91762 1,681,450-1,685,056 (-): Actin-binding protein SLA2/Huntingtin-interacting protein Hip1NEUDI_91762NEUDI_21176 1,685,257-1,685,505 (-): unspecified productNEUDI_21176
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
  • MAT1-2-1 is a weak hit to the other idiomorph's gene and was not counted against the call.
Location
NdisFGSC8579_SC002:1,667,552–1,685,056 · 17.5 kb
Own genes
NdisFGSC8579_SC002:1,667,552–1,685,056 · 17.5 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
6 of 7 gene hits
Nearest contig end
1.6 Mb
Region (samtools)
NdisFGSC8579_SC002:1667552-1685056
Idiomorph scores
  • MAT1-1 654.0

Margin over the set-aside MAT1-2-1 hit: 57.8 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
MAT1-1-390.4MAT1-2-132.6100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
COX13conserved flankhit onlyDIAMOND, proteome72.6cov 67.9%2.4e-51152 bits1,667,552–1,668,472 -–199306_rmscc1040_MAT_MAT1-1NEUDI_91750 (opposite strand)
NEUDI_136650
APN2conserved flankhit onlyDIAMOND, proteome84.1cov 36.7%3.0e-223628 bits1,669,535–1,671,524 +–2903220_liq80xsp_MAT_combinedNEUDI_91756
MAT1-1-3core MAThit onlyDIAMOND, proteome90.4cov 99.7%3.9e-215582 bits1,673,159–1,674,295 -–5141_74-ors-a_MAT_MAT1-1NEUDI_21172
MAT1-2-1core MATother idiomorph, not countedlost to MAT1-1-3, not countedhit onlytblastn32.6cov 17.0%1.0e+0029 bits1,673,483–1,673,620 -–5518_3639_MAT_combinedNEUDI_21172
MAT1-1-2core MAThit onlyDIAMOND, proteome84.9cov 99.7%1.1e-241654 bits1,675,049–1,676,440 +–5141_74-ors-a_MAT_MAT1-1NEUDI_53545
MAT1-1-1core MAThit onlyDIAMOND, proteome92.1cov 99.7%2.3e-207560 bits1,676,843–1,677,832 +–5141_74-ors-a_MAT_MAT1-1NEUDI_91759
SLA2conserved flankhit onlyDIAMOND, proteome80.2cov 100.0%< 1e-1801,328 bits1,681,715–1,685,056 -–230073_uamh-1363_MAT_MAT1-1NEUDI_91762

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
MATNdisFGSC8579_SC002:3,216,256–3,218,356MAT1-2MAT1-2-11too few of the family's genes found
MATNdisFGSC8579_SC016:339,748–374,997MAT1-2MAT1-2-1, MAT1-1-3, MAT1-2-101too few of the family's genes found

Provenance

Genome file
NdiscretaFGSC8579.genome.fasta
Assembly
176 contigs · 37.3 Mb · N50 2.3 Mb
Genome SHA-256
8d4fc252c6c97ddb3c81413b5848d3d24e245c15348bcf047e679c30833407c2
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': 5148, '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 5148', 'routed_by': 'family taxid 5148 (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
2026-11-07T02:39:46Z
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