MATPredict · mating-type report

AheteromorphusCBS117.55

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 02:33 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-2medium confidence

Called loci 1

MAT1-2 MAT family · Ascomycota

medium confidence
Gene order of the MAT1-2 locus on MSFL01000040MAT1-2 locus: genes from left to right on MSFL01000040, 27,150 to 56,886: MAT1-2-4 (core MAT gene, minus strand); CIMG_00407 (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); SLA2 (conserved flank, minus strand).30 kb35 kb40 kb45 kb50 kb55 kb← 25.7 kb more to contig endcalled locusMAT1-2-4: core MAT gene, 27,150–29,853 (-), identity 47.9%, search hit onlyMAT1-2-4CIMG_00407: core MAT gene, 29,099–29,257 (-), identity 35.849%, search hit onlyCIMG_00407MAT1-1-3: core MAT gene, 30,376–31,523 (+), identity 35.4%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 30,376–31,523 (+), identity 59.8%, search hit onlyMAT1-2-1APN2: conserved flank, 33,811–35,688 (-), identity 88.6%, search hit onlyAPN2COX13: conserved flank, 36,345–37,150 (+), identity 74.6%, search hit onlyCOX13SLA2: conserved flank, 53,080–56,886 (-), identity 86.8%, search hit onlySLA2
Gene order on MSFL01000040. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on MSFL01000040, 25,666 to 58,372BO70DRAFT_390446 23,998-26,775 (-): phosphoribosylaminoimidazolesuccinocarboxamide synthaseBO70DRAFT_390446BO70DRAFT_400540 27,150-29,853 (-): unspecified productBO70DRAFT_400540BO70DRAFT_418648 30,376-31,523 (+): mating-type HMG-box protein MAT1-2BO70DRAFT_418648BO70DRAFT_366240 33,692-35,957 (-): DNA lyase Apn2BO70DRAFT_366240BO70DRAFT_167696 36,262-37,547 (+): cytochrome c oxidase subunit VIaBO70DRAFT_167696BO70DRAFT_345287 37,583-40,323 (-): anaphase-promoting complex subunit Apc5BO70DRAFT_345287BO70DRAFT_366242 41,042-42,589 (-): putative aldehyde dehydrogenase family proteinBO70DRAFT_366242BO70DRAFT_356300 42,797-44,242 (+): CoA-transferase family IIIBO70DRAFT_356300BO70DRAFT_374529 44,651-46,356 (+): FAD/NAD(P)-binding domain-containing proteinBO70DRAFT_374529BO70DRAFT_345297 46,563-47,989 (-): PD-(D/E)XK nuclease superfamily | domain-containing proteinBO70DRAFT_345297BO70DRAFT_432911 48,498-49,850 (+): unspecified productBO70DRAFT_432911BO70DRAFT_260192 52,354-52,695 (-): F-box domain | domain-containing proteinBO70DRAFT_260192BO70DRAFT_400551 53,080-56,886 (-): cytoskeleton assembly control protein Sla2BO70DRAFT_400551BO70DRAFT_366246 57,394-60,822 (-): Pleckstrin homology domain | Maintenance of mitochondrial morphology protein 1 | domain-containing proteinBO70DRAFT_366246
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
MSFL01000040:27,150–56,886 · 29.7 kb
Own genes
MSFL01000040:27,150–56,886 · 29.7 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
5 of 7 gene hits
Nearest contig end
27.1 kb
Region (samtools)
MSFL01000040:27150-56886
Idiomorph scores
  • MAT1-2 311.0

Margin over the set-aside MAT1-1-3 hit: 24.4 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
MAT1-2-159.8MAT1-1-335.4100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
MAT1-2-4core MAThit onlyDIAMOND, proteome47.9cov 96.8%7.7e-77230 bits27,150–29,853 -–746128_af293_MAT_MAT1-2BO70DRAFT_400540
CIMG_00407core MAThit onlytblastn35.8cov 19.0%2.6e-0941 bits29,099–29,257 -–5501_rs_MAT_MAT1-2BO70DRAFT_400540
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome35.4cov 43.9%9.3e-1564 bits30,376–31,523 +–230073_uamh-1363_MAT_MAT1-1BO70DRAFT_418648
MAT1-2-1core MAThit onlyDIAMOND, proteome59.8cov 27.7%3.6e-108311 bits30,376–31,523 +–2903220_liq80xsp_MAT_combinedBO70DRAFT_418648
APN2conserved flankhit onlyDIAMOND, proteome88.6cov 36.7%1.9e-310848 bits33,811–35,688 -–2903220_liq80xsp_MAT_combinedBO70DRAFT_366240
COX13conserved flankhit onlyDIAMOND, proteome74.6cov 100.0%2.0e-68196 bits36,345–37,150 +–746128_af293_MAT_MAT1-2BO70DRAFT_167696
SLA2conserved flankhit onlyDIAMOND, proteome86.8cov 100.0%< 1e-1801,557 bits53,080–56,886 -–107463_unknown-1_MAT_MAT1-2BO70DRAFT_400551

Withheld candidate loci 3

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 (3).

Show the 3 withheld loci

Withheld loci (3)

familylocationidiomorph genesmodelledreason
MATMSFL01000006:832,494–834,679MAT1-2MAT1-2-11too few of the family's genes found
MATMSFL01000009:369,920–370,225undeterminedAPN21too few of the family's genes found
MATMSFL01000014:433,580–435,215MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
AheteromorphusCBS117.55.genome.fasta
Assembly
205 contigs · 35.6 Mb · N50 657.9 kb
Genome SHA-256
259af99a1d73905d9fd6162e1dc75372152429027b4fc2bda85e22c06652c129
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
2026-11-07T02:32:14Z
Run time
66 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