MATPredict · mating-type report

EaquamarinaCBS119918

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 02:22 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 AMGV01000008MAT1-2 locus: genes from left to right on AMGV01000008, 90,561 to 102,113: SLA2 (conserved flank, plus strand); MAT1-1-3 (core MAT gene, plus strand); MAT1-2-1 (core MAT gene, plus strand); APN2 (conserved flank, minus strand).90 kb92 kb94 kb96 kb98 kb100 kb102 kb← 90.0 kb more to contig endcalled locusSLA2: conserved flank, 90,561–93,866 (+), identity 81.6%, search hit onlySLA2MAT1-1-3: core MAT gene, 96,996–98,223 (+), identity 36.5%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 96,996–98,223 (+), identity 61.5%, search hit onlyMAT1-2-1APN2: conserved flank, 100,174–102,113 (-), identity 90.9%, search hit onlyAPN2
Gene order on AMGV01000008. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on AMGV01000008, 89,985 to 102,690A1O9_08620 90,561-93,866 (+): I/LWEQ domain | ANTH domain | domain-containing proteinA1O9_08620A1O9_08621 96,996-98,223 (+): HMG (high mobility group) box | domain-containing proteinA1O9_08621A1O9_08622 100,174-102,113 (-): AP endonuclease 2A1O9_08622
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
AMGV01000008:90,561–102,113 · 11.6 kb
Own genes
AMGV01000008:90,561–102,113 · 11.6 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
3 of 4 gene hits
Nearest contig end
90.6 kb
Region (samtools)
AMGV01000008:90561-102113
Idiomorph scores
  • MAT1-2 130.0

Margin over the set-aside MAT1-1-3 hit: 25.0 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
MAT1-2-161.5MAT1-1-336.5100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
SLA2conserved flankhit onlyDIAMOND, proteome81.6cov 100.0%< 1e-1801,361 bits90,561–93,866 +–1301501_voucher-215_MAT_MAT1-1A1O9_08620
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome36.5cov 41.1%3.2e-1257 bits96,996–98,223 +–230073_uamh-1363_MAT_MAT1-1A1O9_08621
MAT1-2-1core MAThit onlyDIAMOND, proteome61.5cov 26.0%3.2e-37130 bits96,996–98,223 +–2903220_liq80xsp_MAT_combinedA1O9_08621
APN2conserved flankhit onlyDIAMOND, proteome90.9cov 36.7%4.0e-247689 bits100,174–102,113 -–2903220_liq80xsp_MAT_combinedA1O9_08622
COX13expected, not found–

Withheld candidate loci 4

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 (4).

Show the 4 withheld loci

Withheld loci (4)

familylocationidiomorph genesmodelledreason
MATAMGV01000004:1,274,933–1,275,541undeterminedCOX131too few of the family's genes found
MATAMGV01000004:1,637,732–1,640,371MAT1-2MAT1-2-1, MAT1-1-31too few of the family's genes found
MATAMGV01000004:4,325,998–4,327,116undeterminedAPN21too few of the family's genes found
MATAMGV01000006:1,892,366–1,894,939MAT1-2MAT1-2-1, MAT1-1-51too few of the family's genes found

Provenance

Genome file
EaquamarinaCBS119918.genome.fasta
Assembly
151 contigs · 41.6 Mb · N50 2.2 Mb
Genome SHA-256
60c34320ef49a8e2f1372a75a192a4849c2e39785cd962de315bcf6dfcd0df3c
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': 43219, '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 43219', 'routed_by': 'family taxid 43219 (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
2026-11-07T02:20:47Z
Run time
76 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