MATPredict · mating-type report

AcarbonariusITEM5010

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 02:17 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 KV907495MAT1-2 locus: genes from left to right on KV907495, 301,239 to 308,178: 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); MAT1-2-4 (core MAT gene, plus strand); CIMG_00407 (core MAT gene, plus strand).302 kb304 kb306 kb308 kb← 300.9 kb more to contig endcalled locusCOX13: conserved flank, 301,239–301,937 (-), identity 75.4%, search hit onlyCOX13APN2: conserved flank, 302,317–304,451 (+), identity 90.9%, search hit onlyAPN2MAT1-1-3: core MAT gene, 305,711–306,828 (-), identity 35.1%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 305,711–306,828 (-), identity 52.5%, search hit onlyMAT1-2-1MAT1-2-4: core MAT gene, 307,323–308,178 (+), identity 48.8%, search hit onlyMAT1-2-4CIMG_00407: core MAT gene, 307,557–308,054 (+), identity 25.749%, search hit onlyCIMG_00407
Gene order on KV907495. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on KV907495, 300,893 to 308,524ASPCADRAFT_204313 300,778-302,002 (-): Cytochrome c oxidase subunit (Cytochrome c oxidase polypeptide VIa)ASPCADRAFT_204313ASPCADRAFT_204314 302,197-304,614 (+): DNA-(apurinic or apyrimidinic site) endonuclease 2ASPCADRAFT_204314ASPCADRAFT_1991 305,711-306,828 (-): HMG box domain-containing proteinASPCADRAFT_1991ASPCADRAFT_1992 307,323-308,178 (+): Mating locus proteinASPCADRAFT_1992
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
KV907495:301,239–308,178 · 6.9 kb
Own genes
KV907495:301,239–308,178 · 6.9 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
4 of 6 gene hits
Nearest contig end
301.2 kb
Region (samtools)
KV907495:301239-308178
Idiomorph scores
  • MAT1-2 307.0

Margin over the set-aside MAT1-1-3 hit: 17.4 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
MAT1-2-152.5MAT1-1-335.1100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
COX13conserved flankhit onlyDIAMOND, proteome75.4cov 100.0%5.7e-69197 bits301,239–301,937 -–746128_af293_MAT_MAT1-2ASPCADRAFT_204313
APN2conserved flankhit onlyDIAMOND, proteome90.9cov 36.7%< 1e-180910 bits302,317–304,451 +–2903220_liq80xsp_MAT_combinedASPCADRAFT_204314
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome35.1cov 41.1%4.0e-1360 bits305,711–306,828 -–230073_uamh-1363_MAT_MAT1-1ASPCADRAFT_1991
MAT1-2-1core MAThit onlyDIAMOND, proteome52.5cov 59.2%3.1e-106307 bits305,711–306,828 -–5501_rs_MAT_MAT1-2ASPCADRAFT_1991
MAT1-2-4core MAThit onlyDIAMOND, proteome48.8cov 96.8%1.3e-75223 bits307,323–308,178 +–746128_af293_MAT_MAT1-2ASPCADRAFT_1992
CIMG_00407core MAThit onlytblastn25.7cov 56.0%1.6e-0855 bits307,557–308,054 +–5501_rs_MAT_MAT1-2ASPCADRAFT_1992
SLA2expected, not found–

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
MATKV907496:1,638,777–1,640,974MAT1-2MAT1-2-11too few of the family's genes found
MATKV907503:2,364–14,879MAT1-2MAT1-1-1, MAT1-2-101too few of the family's genes found
MATKV907503:287,666–300,181MAT1-2MAT1-1-1, MAT1-2-101too few of the family's genes found

Provenance

Genome file
AcarbonariusITEM5010.genome.fasta
Assembly
829 contigs · 36.1 Mb · N50 1.8 Mb
Genome SHA-256
52e4eed350c8311daa363419997e78d8a2eeeb068725a87ba5231b8eadb31cec
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': ['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 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
2026-11-07T02:16:04Z
Run time
68 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