MATPredict · mating-type report

KheveanensisCBS569

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 02:45 UTC by MATPredict 0.8.1

Result

Mating type

alphahigh confidence

Called loci 1

alpha MAT family · Basidiomycota

high confidence
Gene order of the alpha locus on KV700203alpha locus: genes from left to right on KV700203, 24,629 to 92,088: RPL39 (core MAT gene, plus strand); STE3 (core MAT gene, minus strand); MFa (core MAT gene, plus strand); MFalpha (core MAT gene, plus strand); PAN6 (conserved flank, minus strand).40 kb60 kb80 kb← 21.3 kb more to contig endcalled locusRPL39: core MAT gene, 24,629–25,189 (+), identity 90.0%, the two modelling tools disagreeRPL39STE3: core MAT gene, 45,608–46,326 (-), identity 48.7%, search hit onlySTE3MFa: core MAT gene, 56,345–56,461 (+), identity 52.381%, search hit onlyMFa (lost to MFalpha)MFalpha: core MAT gene, 56,345–56,461 (+), identity 71.05%, gene modelMFalphaPAN6: conserved flank, 90,036–92,088 (-), identity 66.5%, search hit onlyPAN6
Gene order on KV700203. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on KV700203, 21,264 to 95,453I317_04330 19,451-22,686 (-): Fungal Zn(2)-Cys(6) binuclear cluster domain | Fungal specific transcription factor domain | domain-containing proteinI317_04330I317_04331 28,096-30,054 (-): hypothetical proteinI317_04331I317_04332 32,363-34,843 (-): HEC/Ndc80p family | domain-containing proteinI317_04332I317_04333 35,238-37,689 (-): STE/STE20/PAKA protein kinaseI317_04333I317_04334 38,145-42,528 (-): C2 domain | MUN domain | domain-containing proteinI317_04334I317_04335 42,982-45,516 (+): E1-like protein-activating enzyme Gsa7p/Apg7pI317_04335I317_04336 45,608-46,326 (-): Pheromone A receptor | domain-containing proteinI317_04336I317_04337 47,672-50,256 (+): STE like transcription factor | Zinc finger, C2H2 type | domain-containing proteinI317_04337I317_04338 51,036-52,521 (-): pre-60S factor REI1I317_04338I317_04339 52,905-55,601 (+): ATP-dependent RNA helicase DBP10I317_04339I317_04340 56,852-59,051 (-): ubiquitinyl hydrolase 1I317_04340I317_04341 59,430-60,155 (-): RNA recognition motif | domain-containing proteinI317_04341I317_04342 61,800-64,232 (-): amino acid transporterI317_04342I317_04343 65,765-67,060 (+): phytanoyl-CoA dioxygenaseI317_04343I317_04344 68,165-71,894 (+): transcription factorI317_04344I317_04345 72,222-72,798 (-): Heat shock protein 9/12 | domain-containing proteinI317_04345I317_04346 74,253-77,039 (-): hypothetical proteinI317_04346I317_04347 77,640-80,824 (+): ATPaseI317_04347I317_04348 81,555-88,748 (-): chitin synthaseI317_04348I317_04349 90,036-92,088 (-): pantoate-beta-alanine ligaseI317_04349I317_04350 92,828-95,279 (+): U4/U6 small nuclear ribonucleoprotein PRP4I317_04350
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
  • gene model
  • tools disagree
  • alternate model
  • search hit only
Location
KV700203:24,629–92,088 · 67.5 kb
Own genes
KV700203:24,629–92,088 · 67.5 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
4 of 5 gene hits
Nearest contig end
24.6 kb
Region (samtools)
KV700203:24629-92088
Idiomorph scores
  • alpha 33.9

Margin over the set-aside MFa hit: 16.8 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
MFalpha69.2MFa52.4100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
RPL39core MATmodels differexonerateminiprot: 24,629–25,192, 74.1%90.0cov 100.0%1.0e-1465 bits24,629–25,189 +340410_jec20_MAT_anone
STE3core MAThit onlyDIAMOND, proteome48.7cov 50.5%4.9e-60182 bits45,608–46,326 -–40410_jec21_MAT_alphaI317_04336
MFacore MATlost to MFalpha, not countedhit onlytblastn52.4cov 100.0%6.4e-0228 bits56,345–56,461 +–40410_jec20_MAT_anone
MFalphacore MATgene modelexonerate71.0cov 100.0%5.8e-0434 bits56,345–56,461 +140410_jec21_MAT_alphanone
PAN6conserved flankhit onlyDIAMOND, proteome66.5cov 88.6%2.9e-174483 bits90,036–92,088 -–40410_jec20_MAT_aI317_04349
FAO1expected, not found–
NOG2not searchable: no reference protein in the database–
UAP1not searchable: no reference protein in the database–

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 (3); fewer than 2 genes could be modelled (1).

Show the 4 withheld loci

Withheld loci (4)

familylocationidiomorph genesmodelledreason
MATKI669537:105,060–134,517alphaMFalpha, STE30fewer than 2 genes could be modelled
MATKI669530:6,011–37,763alphaFAO1, SXI1, SXI23too few of the family's genes found
MATKV700174:134,679–136,704undeterminedSTE31too few of the family's genes found
MATKV700236:4,669–7,126aSXI21too few of the family's genes found

Provenance

Genome file
KheveanensisCBS569.genome.fasta
Assembly
242 contigs · 25.3 Mb · N50 174.7 kb
Genome SHA-256
24214361dce838ea3aed130773733b5a20f0187299df4b4662f30e83e744efed
MATPredict
0.8.1 (v0.8.1, 3a62e6302b)
Database
86f18d232e4fe95d · 185 records
Taxonomy
local NCBI taxonomy snapshot 2026-10-01
Parameters
phylum=Basidiomycota, phylum_guess={'requested': 'auto', 'status': 'ok', 'usable': True, 'reason': None, 'phylum': 'Basidiomycota', 'phylum_taxid': 5204, 'deepest_rank': 'genus', 'routing_taxid': 1884633, '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 Basidiomycota', 'action': 'routed', 'weak_call_accepted': False, 'genetic_code': 1, 'genetic_code_from': 'family taxid 1884633', 'routed_by': 'family taxid 1884633 (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, supported_min_bitscore=33.0
Run started
2026-11-07T02:44:24Z
Run time
40 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