MATPredict · mating-type report

Fvanettenii77134

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 02:15 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-1high confidence

Called loci 1

MAT1-1 MAT family · Ascomycota

high confidence
Gene order of the MAT1-1 locus on GG698897MAT1-1 locus: genes from left to right on GG698897, 2,930,981 to 2,950,240: COX13 (conserved flank, minus strand); APN2 (conserved flank, plus strand); MAT1-1-3 (core MAT gene, minus strand); MAT1-2-1 (core MAT gene, minus strand); MAT1-1-2 (core MAT gene, plus strand); MAT1-1-1 (core MAT gene, plus strand); SLA2 (conserved flank, minus strand).2,935 kb2,940 kb2,945 kb2,950 kb358.9 kb more to contig end →called locusCOX13: conserved flank, 2,930,981–2,931,741 (-), identity 69.0%, search hit onlyCOX13APN2: conserved flank, 2,932,270–2,934,801 (+), identity 86.0%, search hit onlyAPN2MAT1-1-3: core MAT gene, 2,935,674–2,936,283 (-), identity 39.4%, search hit onlyMAT1-1-3MAT1-2-1: core MAT gene, 2,935,683–2,935,874 (-), identity 34.375%, search hit onlyMAT1-2-1 (lost to MAT1-1-3)MAT1-1-2: core MAT gene, 2,936,734–2,938,233 (+), identity 33.2%, search hit onlyMAT1-1-2MAT1-1-1: core MAT gene, 2,938,906–2,939,627 (+), identity 46.0%, search hit onlyMAT1-1-1SLA2: conserved flank, 2,946,790–2,950,240 (-), identity 81.0%, search hit onlySLA2
Gene order on GG698897. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on GG698897, 2,930,018 to 2,951,202NECHADRAFT_92127 2,927,808-2,930,265 (-): Anaphase-promoting complex subunit 5 [Source:UniProtKB/TrEMBL;Acc:C7YN78]NECHADRAFT_92127NECHADRAFT_99757 2,930,877-2,931,770 (-): Cytochrome c oxidase subunit [Source:UniProtKB/TrEMBL;Acc:C7YN79]NECHADRAFT_99757NECHADRAFT_78136 2,932,270-2,934,801 (+): Endo/exonuclease/phosphatase domain-containing protein [Source:UniProtKB/TrEMBL;Acc:C7YN80]NECHADRAFT_78136NECHADRAFT_19608 2,935,674-2,936,283 (-): HMG box domain-containing protein [Source:UniProtKB/TrEMBL;Acc:C7YN81]NECHADRAFT_19608NECHADRAFT_78138 2,936,734-2,938,233 (+): SET domain-containing protein [Source:UniProtKB/TrEMBL;Acc:C7YN82]NECHADRAFT_78138NECHADRAFT_17696 2,938,906-2,939,627 (+): Alpha box domain-containing protein [Source:UniProtKB/TrEMBL;Acc:C7YN83]NECHADRAFT_17696NECHADRAFT_78140 2,943,129-2,943,491 (-): Transmembrane protein [Source:UniProtKB/TrEMBL;Acc:C7YN84]NECHADRAFT_78140NECHADRAFT_78141 2,944,196-2,945,323 (+): Pecanex-like protein [Source:UniProtKB/TrEMBL;Acc:C7YN85]NECHADRAFT_78141NECHADRAFT_99759 2,946,790-2,950,240 (-): Sla2 Src like adaptor 2 [Source:UniProtKB/TrEMBL;Acc:C7YN86]NECHADRAFT_99759
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
  • MAT1-2-1 is a weak hit to the other idiomorph's gene and was not counted against the call.
Location
GG698897:2,930,981–2,950,240 · 19.3 kb
Own genes
GG698897:2,930,981–2,950,240 · 19.3 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
6 of 7 gene hits
Nearest contig end
359.8 kb
Region (samtools)
GG698897:2930981-2950240
Idiomorph scores
  • MAT1-1 213.0

Margin over the set-aside MAT1-2-1 hit: 5.0 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
MAT1-1-339.4MAT1-2-134.4100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
COX13conserved flankhit onlyDIAMOND, proteome69.0cov 96.9%5.0e-65187 bits2,930,981–2,931,741 -–578113_sxlc146_MAT_MAT1-2NECHADRAFT_99757
APN2conserved flankhit onlyDIAMOND, proteome86.0cov 35.8%4.7e-213600 bits2,932,270–2,934,801 +–2903220_liq80xsp_MAT_combinedNECHADRAFT_78136
MAT1-1-3core MAThit onlyDIAMOND, proteome39.4cov 72.8%2.3e-33109 bits2,935,674–2,936,283 -–5127_mo44_MAT_MAT1-1NECHADRAFT_19608
MAT1-2-1core MATother idiomorph, not countedlost to MAT1-1-3, not countedhit onlytblastn34.4cov 22.0%2.0e-0440 bits2,935,683–2,935,874 -–5127_mo45_MAT_MAT1-2NECHADRAFT_19608
MAT1-1-2core MAThit onlyDIAMOND, proteome33.2cov 98.3%1.8e-66213 bits2,936,734–2,938,233 +–5127_mo44_MAT_MAT1-1NECHADRAFT_78138
MAT1-1-1core MAThit onlyDIAMOND, proteome46.0cov 14.1%7.6e-65197 bits2,938,906–2,939,627 +–230073_uamh-1363_MAT_MAT1-1NECHADRAFT_17696
SLA2conserved flankhit onlyDIAMOND, proteome81.0cov 100.0%< 1e-1801,411 bits2,946,790–2,950,240 -–230073_uamh-1363_MAT_MAT1-1NECHADRAFT_99759

Withheld candidate loci 2

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).

Show the 2 withheld loci

Withheld loci (2)

familylocationidiomorph genesmodelledreason
MATGG698896:39,002–40,617MAT1-2MAT1-2-11too few of the family's genes found
MATGG698898:646,739–648,862MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
Fvanettenii77134.genome.fasta
Assembly
209 contigs · 51.3 Mb · N50 1.3 Mb
Genome SHA-256
6770d668b531d853d1034b4bacb59d8b5270c4d7d1527dfe02221a26f39208f9
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': 110618, '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 110618', 'routed_by': 'family taxid 110618 (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
2026-11-07T02:13:46Z
Run time
92 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