MATPredict · mating-type report

EmesophilaCBS40295

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 02:28 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-1medium confidence

Called loci 1

MAT1-1 MAT family · Ascomycota

medium confidence
Gene order of the MAT1-1 locus on KN847520MAT1-1 locus: genes from left to right on KN847520, 3,871,562 to 3,877,752: MAT1-1-1 (core MAT gene, minus strand); APN2 (conserved flank, minus strand).3,872 kb3,873 kb3,874 kb3,875 kb3,876 kb3,877 kb3,878 kb2,259.1 kb more to contig end →called locusMAT1-1-1: core MAT gene, 3,871,562–3,872,691 (-), identity 35.6%, search hit onlyMAT1-1-1APN2: conserved flank, 3,875,864–3,877,752 (-), identity 95.5%, search hit onlyAPN2
Gene order on KN847520. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on KN847520, 3,871,253 to 3,878,061PV10_01239 3,871,562-3,872,691 (-): Mating-type protein MAT alpha 1 HMG-box | domain-containing proteinPV10_01239PV10_01240 3,871,576-3,875,354 (+): hypothetical proteinPV10_01240PV10_01241 3,875,501-3,877,926 (-): exodeoxyribonuclease IIIPV10_01241
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
Location
KN847520:3,871,562–3,877,752 · 6.2 kb
Own genes
KN847520:3,871,562–3,877,752 · 6.2 kb
Locus
Provisional: the call only tied the admission bar, or came from the relaxed pass.
Genes modelled
2 of 2 gene hits
Nearest contig end
2.3 Mb
Region (samtools)
KN847520:3871562-3877752
Idiomorph scores
  • MAT1-1 90.9

No other idiomorph scored.

Score: bitscore of the best core-gene hit for each idiomorph.

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
MAT1-1-1core MAThit onlyDIAMOND, proteome35.6cov 37.3%7.5e-2391 bits3,871,562–3,872,691 -–199306_rmscc1040_MAT_MAT1-1PV10_01239
PV10_01240 (opposite strand)
APN2conserved flankhit onlyDIAMOND, proteome95.5cov 36.7%5.6e-251698 bits3,875,864–3,877,752 -–2903220_liq80xsp_MAT_combinedPV10_01241
SLA2expected, not found–
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 (2); fewer than 2 genes could be modelled (1).

Show the 3 withheld loci

Withheld loci (3)

familylocationidiomorph genesmodelledreason
MATKN847520:5,532,467–5,587,704MAT1-1MAT1-1-1, MAT1-2-1, COX131fewer than 2 genes could be modelled
MATKN847520:4,913,436–4,950,995MAT1-1MAT1-1-1, SLA2, MAT1-1-3, MAT1-2-71too few of the family's genes found
MATKN847520:5,981,388–5,984,430MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
EmesophilaCBS40295.genome.fasta
Assembly
9 contigs · 29.3 Mb · N50 5.1 Mb
Genome SHA-256
08c8f6325eb7b28c56e804701564e94badbe153c287b0d9334b883b3b44d56b7
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': 43219, '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 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
2026-11-07T02:27:08Z
Run time
61 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