MATPredict · mating-type report

AeucalypticolaCBS122712

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 02:00 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 MSFU01000025MAT1-2 locus: genes from left to right on MSFU01000025, 284,985 to 305,984: SLA2 (conserved flank, plus strand); 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).285 kb290 kb295 kb300 kb305 kb209.1 kb more to contig end →called locusSLA2: conserved flank, 284,985–288,791 (+), identity 88.8%, search hit onlySLA2MAT1-2-4: core MAT gene, 299,397–299,891 (-), identity 43.3%, search hit onlyMAT1-2-4CIMG_00407: core MAT gene, 299,400–299,693 (-), identity 23.232%, search hit onlyCIMG_00407MAT1-1-3: core MAT gene, 300,377–301,483 (+), identity 35.1%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 300,377–301,483 (+), identity 57.0%, search hit onlyMAT1-2-1APN2: conserved flank, 302,569–304,707 (-), identity 90.9%, search hit onlyAPN2COX13: conserved flank, 305,262–305,984 (+), identity 79.4%, search hit onlyCOX13
Gene order on MSFU01000025. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on MSFU01000025, 283,937 to 307,034BO83DRAFT_381143 280,862-284,388 (+): PH domain-containing proteinBO83DRAFT_381143BO83DRAFT_381144 284,630-289,010 (+): cytoskeleton assembly control protein Sla2BO83DRAFT_381144BO83DRAFT_320043 289,177-290,851 (-): salicylate hydroxylaseBO83DRAFT_320043BO83DRAFT_367338 291,313-292,776 (-): CAIB/BAIF family enzymeBO83DRAFT_367338BO83DRAFT_381147 293,298-294,909 (+): aldehyde dehydrogenase family proteinBO83DRAFT_381147BO83DRAFT_410619 295,139-296,525 (-): unspecified productBO83DRAFT_410619BO83DRAFT_320081 299,397-299,891 (-): unspecified productBO83DRAFT_320081BO83DRAFT_452341 300,377-301,483 (+): mating-type HMG-box protein MAT1-2BO83DRAFT_452341BO83DRAFT_440026 302,569-304,707 (-): DNA lyase Apn2BO83DRAFT_440026BO83DRAFT_344412 305,262-306,324 (+): cytochrome c oxidase subunit VIaBO83DRAFT_344412BO83DRAFT_401616 306,366-308,999 (-): anaphase-promoting complex subunit Apc5BO83DRAFT_401616
FungiDB release 68 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
MSFU01000025:284,985–305,984 · 21.0 kb
Own genes
MSFU01000025:284,985–305,984 · 21.0 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
5 of 7 gene hits
Nearest contig end
210.1 kb
Region (samtools)
MSFU01000025:284985-305984
Idiomorph scores
  • MAT1-2 292.0

Margin over the set-aside MAT1-1-3 hit: 21.9 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
MAT1-2-157.0MAT1-1-335.1100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
SLA2conserved flankhit onlyDIAMOND, proteome88.8cov 100.0%< 1e-1801,566 bits284,985–288,791 +–746128_af293_MAT_MAT1-2BO83DRAFT_381144
MAT1-2-4core MAThit onlyDIAMOND, proteome43.3cov 65.6%1.7e-40130 bits299,397–299,891 -–746128_af293_MAT_MAT1-2BO83DRAFT_320081
CIMG_00407core MAThit onlytblastn23.2cov 37.0%4.2e-0235 bits299,400–299,693 -–5501_rs_MAT_MAT1-2BO83DRAFT_320081
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome35.1cov 41.1%5.4e-1359 bits300,377–301,483 +–230073_uamh-1363_MAT_MAT1-1BO83DRAFT_452341
MAT1-2-1core MAThit onlyDIAMOND, proteome57.0cov 26.5%1.5e-100292 bits300,377–301,483 +–1301501_voucher-267_MAT_MAT1-2BO83DRAFT_452341
APN2conserved flankhit onlyDIAMOND, proteome90.9cov 36.7%< 1e-180899 bits302,569–304,707 -–2903220_liq80xsp_MAT_combinedBO83DRAFT_440026
COX13conserved flankhit onlyDIAMOND, proteome79.4cov 100.0%3.1e-75213 bits305,262–305,984 +–746128_af293_MAT_MAT1-2BO83DRAFT_344412

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
MATMSFU01000033:114,434–116,626MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
AeucalypticolaCBS122712.genome.fasta
Assembly
131 contigs · 34.8 Mb · N50 865.1 kb
Genome SHA-256
b53f94f3a360e7904161b89015bc38b112966b619952ffc559552fd7cbf5013e
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
2026-11-07T01:59:15Z
Run time
73 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