MATPredict · mating-type report

MacridumCQMa102

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 02:52 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 GL698509MAT1-2 locus: genes from left to right on GL698509, 57,589 to 79,908: 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); SLA2 (conserved flank, minus strand).60 kb65 kb70 kb75 kb80 kb← 56.5 kb more to contig endcalled locusCOX13: conserved flank, 57,589–58,327 (-), identity 65.6%, search hit onlyCOX13APN2: conserved flank, 58,803–61,038 (+), identity 86.4%, search hit onlyAPN2MAT1-1-3: core MAT gene, 62,629–63,471 (-), identity 37.8%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 62,629–63,471 (-), identity 66.7%, search hit onlyMAT1-2-1SLA2: conserved flank, 75,015–79,908 (-), identity 79.0%, search hit onlySLA2
Gene order on GL698509. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on GL698509, 56,475 to 81,024MAC_05347 54,351-56,821 (-): anaphase-promoting complex proteinMAC_05347MAC_05348 57,589-58,327 (-): cytochrome c oxidase subunit VIa, putativeMAC_05348MAC_05349 58,803-61,038 (+): DNA lyaseMAC_05349MAC_05350 62,629-63,471 (-): MAT1-2-1 like proteinMAC_05350MAC_05351 66,048-66,837 (+): unspecified productMAC_05351MAC_05352 73,483-74,510 (-): WD domain, G-beta repeat containing proteinMAC_05352MAC_05353 75,015-79,908 (-): ANTH domain proteinMAC_05353
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
GL698509:57,589–79,908 · 22.3 kb
Own genes
GL698509:57,589–79,908 · 22.3 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
4 of 5 gene hits
Nearest contig end
57.6 kb
Region (samtools)
GL698509:57589-79908
Idiomorph scores
  • MAT1-2 149.0

Margin over the set-aside MAT1-1-3 hit: 28.9 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
MAT1-2-166.7MAT1-1-337.8100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
COX13conserved flankhit onlyDIAMOND, proteome65.6cov 72.5%4.7e-61177 bits57,589–58,327 -–5158_cbs114723_MAT_unswitchedMAC_05348
APN2conserved flankhit onlyDIAMOND, proteome86.4cov 36.7%3.4e-230646 bits58,803–61,038 +–2903220_liq80xsp_MAT_combinedMAC_05349
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome37.8cov 41.1%2.3e-1257 bits62,629–63,471 -–230073_uamh-1363_MAT_MAT1-1MAC_05350
MAT1-2-1core MAThit onlyDIAMOND, proteome66.7cov 64.3%4.1e-47149 bits62,629–63,471 -–61372_suf959_MAT_MAT1-2MAC_05350
SLA2conserved flankhit onlyDIAMOND, proteome79.0cov 81.6%< 1e-1801,263 bits75,015–79,908 -–1301501_voucher-215_MAT_MAT1-1MAC_05353

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
MATGL698540:67,740–69,991MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
MacridumCQMa102.genome.fasta
Assembly
241 contigs · 39.4 Mb · N50 329.5 kb
Genome SHA-256
36f3e84413031fb0dd8a7d3edd13bbe7bb2ebf9f51091e600b5d7bb3c8fabe4b
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': 34397, '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 34397', 'routed_by': 'family taxid 34397 (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
2026-11-07T02:51:20Z
Run time
91 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