MATPredict · mating-type report

TequinumCBS127.97

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 02:53 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-2medium confidence

Called loci 1

MAT1-2 MAT family · Ascomycota

medium confidence
Gene order of the MAT1-2 locus on DS995742MAT1-2 locus: genes from left to right on DS995742, 316,061 to 328,526: CIMG_00407 (core MAT gene, minus strand); MAT1-2-4 (core MAT gene, minus strand); MAT1-1-3 (core MAT gene, plus strand); MAT1-2-1 (core MAT gene, plus strand); MAT1-1-4 (core MAT gene, minus strand); APN2 (conserved flank, minus strand); COX13 (conserved flank, plus strand); SLA2 (conserved flank, minus strand).316 kb318 kb320 kb322 kb324 kb326 kb328 kb35.1 kb more to contig end →called locusCIMG_00407: core MAT gene, 316,061–316,699 (-), identity 24.883%, search hit onlyCIMG_00407MAT1-2-4: core MAT gene, 316,136–316,510 (-), identity 25.397%, search hit onlyMAT1-2-4MAT1-1-3: core MAT gene, 317,371–318,606 (+), identity 37.2%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 317,371–318,606 (+), identity 60.0%, search hit onlyMAT1-2-1MAT1-1-4: core MAT gene, 319,123–320,381 (-), identity 42.9%, search hit onlyMAT1-1-4APN2: conserved flank, 321,144–323,219 (-), identity 76.6%, search hit onlyAPN2COX13: conserved flank, 323,497–324,152 (+), identity 68.9%, search hit onlyCOX13SLA2: conserved flank, 324,577–328,526 (-), identity 88.1%, search hit onlySLA2
Gene order on DS995742. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on DS995742, 315,437 to 329,150TEQG_04868 315,968-316,873 (-): unspecified productTEQG_04868TEQG_04869 317,371-318,606 (+): HMG domain-containing proteinTEQG_04869TEQG_04870 319,123-320,381 (-): unspecified productTEQG_04870TEQG_04871 321,144-323,219 (-): DNA lyaseTEQG_04871TEQG_04872 323,497-324,152 (+): cytochrome c oxidase subunit VIaTEQG_04872TEQG_08710 324,577-328,526 (-): ANTH domain | I/LWEQ domain | domain-containing proteinTEQG_08710TEQG_04875 329,065-331,770 (-): uncharacterized PH domain-containing proteinTEQG_04875
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
DS995742:316,061–328,526 · 12.5 kb
Own genes
DS995742:316,061–328,526 · 12.5 kb
Locus
Genes of both idiomorphs at one locus.
Genes modelled
5 of 8 gene hits
Nearest contig end
35.7 kb
Region (samtools)
DS995742:316061-328526
Idiomorph scores
  • MAT1-2 282.0
  • MAT1-1 142.0

Margin over the next idiomorph: 140.0

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
MAT1-2-160.0MAT1-1-337.2100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
CIMG_00407core MAThit onlytblastn24.9cov 61.0%1.2e-1267 bits316,061–316,699 -–5501_rs_MAT_MAT1-2TEQG_04868
MAT1-2-4core MAThit onlytblastn25.4cov 42.0%4.9e-0647 bits316,136–316,510 -–746128_af293_MAT_MAT1-2TEQG_04868
MAT1-1-3core MATlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome37.2cov 43.3%4.1e-1257 bits317,371–318,606 +–230073_uamh-1363_MAT_MAT1-1TEQG_04869
MAT1-2-1core MAThit onlyDIAMOND, proteome60.0cov 25.7%8.0e-96282 bits317,371–318,606 +–2903220_liq80xsp_MAT_combinedTEQG_04869
MAT1-1-4core MAThit onlyDIAMOND, proteome42.9cov 67.9%3.1e-43142 bits319,123–320,381 -–199306_rmscc1040_MAT_MAT1-1TEQG_04870
APN2conserved flankhit onlyDIAMOND, proteome76.6cov 90.4%3.5e-226633 bits321,144–323,219 -–27339_unknown-1_MAT_MAT1-2TEQG_04871
COX13conserved flankhit onlyDIAMOND, proteome68.9cov 100.0%2.2e-59173 bits323,497–324,152 +–5501_rs_MAT_MAT1-2TEQG_04872
SLA2conserved flankhit onlyDIAMOND, proteome88.1cov 99.3%< 1e-1801,403 bits324,577–328,526 -–107463_unknown-1_MAT_MAT1-2TEQG_08710
MAT1-1-1expected, not found–

Withheld candidate loci 1

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 (1).

Show the 1 withheld locus

Withheld loci (1)

familylocationidiomorph genesmodelledreason
MATDS995736:242,801–263,768MAT1-2MAT1-2-1, MAT1-2-101too few of the family's genes found

Provenance

Genome file
TequinumCBS127.97.genome.fasta
Assembly
125 contigs · 24.2 Mb · N50 397.0 kb
Genome SHA-256
5b2cda46633e427c8ae7a241e40fd1b75abb8652664d1b1d02cd1782ec128343
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': 34384, '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 34384', 'routed_by': 'family taxid 34384 (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
2026-11-07T02:52:47Z
Run time
66 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