MATPredict · mating-type report

HvastatrixRaceXXXIII

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 02:01 UTC by MATPredict 0.8.1

Result

Mating-type loci

undeterminedhigh confidenceundeterminedhigh confidence

Called loci 2

undetermined rustHD family · Basidiomycota

high confidence
Gene order of the undetermined locus on PHNK01003389undetermined locus: genes from left to right on PHNK01003389, 650 to 4,914: bE (core MAT gene, minus strand); bW (core MAT gene, plus strand).1 kb2 kb3 kb4 kb5 kbcontig endcalled locusbE: core MAT gene, 1,104–2,771 (-), identity 100.0%, gene modelbEbW: core MAT gene, 3,323–4,914 (+), identity 99.18%, gene modelbW
Gene order on PHNK01003389. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on PHNK01003389, 1 to 5,214no FungiDB gene annotated in this window
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
  • Idiomorph undetermined: the evidence for two idiomorphs is tied or too close to call.
Location
PHNK01003389:650–4,914 · 4.3 kb
Own genes
PHNK01003389:1,104–4,914 · 3.8 kb · the span runs 454 bp beyond these genes
Locus
A MAT gene with no flanking gene beside it; not a full locus.
Genes modelled
2 of 2 gene hits
Nearest contig end
649 bp
Region (samtools)
PHNK01003389:650-4914

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
bEcore MATgene modelexonerate100.0cov 100.0%< 1e-180471 bits1,104–2,771 -3203904_cifc-hv-178a_rustHD_b1none
bWcore MATgene modelexonerate99.2cov 98.6%3.0e-159504 bits3,323–4,914 +2203904_cifc-hv-178a_rustHD_b1none

undetermined rustHD family · Basidiomycota

high confidence
Gene order of the undetermined locus on PHNK01001394undetermined locus: genes from left to right on PHNK01001394, 5,755 to 9,597: bW (core MAT gene, minus strand); bE (core MAT gene, plus strand).6 kb7 kb8 kb9 kb← 5.5 kb more to contig endcalled locusbW: core MAT gene, 6,194–7,342 (-), identity 69.87%, the two modelling tools disagreebWbE: core MAT gene, 7,889–9,594 (+), identity 63.17%, the two modelling tools disagreebE
Gene order on PHNK01001394. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on PHNK01001394, 5,455 to 9,897no FungiDB gene annotated in this window
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
  • tools disagree
  • alternate model
  • Idiomorph undetermined: the evidence for two idiomorphs is tied or too close to call.
Location
PHNK01001394:5,755–9,597 · 3.8 kb
Own genes
PHNK01001394:6,194–9,594 · 3.4 kb · the span runs 442 bp beyond these genes
Locus
A MAT gene with no flanking gene beside it; not a full locus.
Genes modelled
2 of 2 gene hits
Nearest contig end
5.8 kb
Region (samtools)
PHNK01001394:5755-9597

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
bWcore MATmodels differexonerateminiprot: 5,689–7,342, 59.4%4 frameshiftsdefective gene model69.9cov 64.0%2.8e-78270 bits6,194–7,342 -4203904_cifc-hv-178a_rustHD_b1none
bEcore MATmodels differexonerateminiprot: 7,889–9,600, 60.1%63.2cov 98.8%9.4e-129290 bits7,889–9,594 +4203904_cifc-hv-178a_rustHD_b1none

Withheld candidate loci 8

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: fewer than 2 genes could be modelled (8).

Show the 8 withheld loci

Withheld loci (8)

familylocationidiomorph genesmodelledreason
rustHDPHNK01023289:10,204–10,386undeterminedbW0fewer than 2 genes could be modelled
rustHDPHNK01003084:7,475–8,279undeterminedbE0fewer than 2 genes could be modelled
rustHDPHNK01010975:3,512–3,766undeterminedbE0fewer than 2 genes could be modelled
rustHDPHNK01003969:3,047–3,181undeterminedbE0fewer than 2 genes could be modelled
rustHDPHNK01074814:87–458undeterminedbE0fewer than 2 genes could be modelled
rustHDPHNK01064759:6,108–6,329undeterminedbE0fewer than 2 genes could be modelled
rustHDPHNK01025027:50–253undeterminedbE0fewer than 2 genes could be modelled
rustHDPHNK01010733:896–1,129undeterminedbE0fewer than 2 genes could be modelled

Provenance

Genome file
HvastatrixRaceXXXIII.genome.fasta
Assembly
116,756 contigs · 543.6 Mb · N50 9.9 kb
Genome SHA-256
eb153bd48d67b8ac02b4c2a809731df8bfe7e56fd36f65ceff8569b1745b43b2
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': 2792465, 'routing_taxid_rank': 'family', 'flags': ['long_genome', 'fragmented'], '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 2792465', 'routed_by': 'family taxid 2792465 (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
2026-11-07T01:56:56Z
Run time
276 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