MATPredict · mating-type report

AapisARSEF7405

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 01:50 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 AZGZ01000031MAT1-2 locus: genes from left to right on AZGZ01000031, 2,862 to 12,584: APN2 (conserved flank, plus strand); MAT1-1-3 (core MAT gene, minus strand); MAT1-2-1 (core MAT gene, minus strand); CIMG_00407 (core MAT gene, plus strand); MAT1-2-4 (core MAT gene, plus strand); SLA2 (conserved flank, minus strand).4 kb6 kb8 kb10 kb12 kb← 2.4 kb more to contig endcalled locusAPN2: conserved flank, 2,862–4,801 (+), identity 84.1%, search hit onlyAPN2MAT1-1-3: core MAT gene, 5,242–6,339 (-), identity 39.2%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 5,242–6,339 (-), identity 55.6%, search hit onlyMAT1-2-1CIMG_00407: core MAT gene, 7,102–7,512 (+), identity 25.714%, search hit onlyCIMG_00407MAT1-2-4: core MAT gene, 7,159–7,512 (+), identity 26.23%, search hit onlyMAT1-2-4SLA2: conserved flank, 8,501–12,584 (-), identity 91.4%, search hit onlySLA2
Gene order on AZGZ01000031. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on AZGZ01000031, 2,376 to 13,071AAP_05388 2,862-4,801 (+): Endo/exonuclease/phosphatase domain-containing protein [Source:UniProtKB/TrEMBL;Acc:A0A167VL01]AAP_05388AAP_05389 5,242-6,339 (-): HMG box domain-containing protein [Source:UniProtKB/TrEMBL;Acc:A0A167VL34]AAP_05389AAP_05390 6,814-7,728 (+): unspecified productAAP_05390AAP_05391 8,501-12,584 (-): Cytoskeleton assembly control protein [Source:UniProtKB/TrEMBL;Acc:A0A167VL49]AAP_05391
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
AZGZ01000031:2,862–12,584 · 9.7 kb
Own genes
AZGZ01000031:2,862–12,584 · 9.7 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
3 of 6 gene hits
Nearest contig end
2.9 kb
Region (samtools)
AZGZ01000031:2862-12584
Idiomorph scores
  • MAT1-2 196.0

Margin over the set-aside MAT1-1-3 hit: 16.4 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
MAT1-2-155.6MAT1-1-339.2100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
APN2conserved flankhit onlyDIAMOND, proteome84.1cov 36.7%5.2e-144422 bits2,862–4,801 +–2903220_liq80xsp_MAT_combinedAAP_05388
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome39.2cov 41.1%2.8e-1360 bits5,242–6,339 -–230073_uamh-1363_MAT_MAT1-1AAP_05389
MAT1-2-1core MAThit onlyDIAMOND, proteome55.6cov 24.1%5.4e-63196 bits5,242–6,339 -–27339_unknown-1_MAT_MAT1-2AAP_05389
CIMG_00407core MAThit onlytblastn25.7cov 44.0%7.4e-0749 bits7,102–7,512 +–5501_rs_MAT_MAT1-2AAP_05390
MAT1-2-4core MAThit onlytblastn26.2cov 40.0%6.0e-0337 bits7,159–7,512 +–746128_af293_MAT_MAT1-2AAP_05390
SLA2conserved flankhit onlyDIAMOND, proteome91.4cov 100.0%< 1e-1801,448 bits8,501–12,584 -–1301501_voucher-215_MAT_MAT1-1AAP_05391
COX13expected, 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
MATAZGZ01000001:1,181,454–1,183,902MAT1-2MAT1-2-11too few of the family's genes found
MATAZGZ01000004:599,275–599,822undeterminedCOX131too few of the family's genes found
MATAZGZ01000016:280,725–281,989MAT1-1MAT1-1-41too few of the family's genes found

Provenance

Genome file
AapisARSEF7405.genome.fasta
Assembly
82 contigs · 20.3 Mb · N50 482.6 kb
Genome SHA-256
a0123d89b593b706e92dc89c37727ec5e97b5adc395e2ab72965677839b031f4
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': 5103, '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 5103', 'routed_by': 'family taxid 5103 (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
2026-11-07T01:49:55Z
Run time
52 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