MATPredict · mating-type report

AtanneriNIH1004

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 SOSA01000270MAT1-1 locus: genes from left to right on SOSA01000270, 26,777 to 37,902: SLA2 (conserved flank, plus strand); MAT1-1-1 (core MAT gene, minus strand); MAT1-2-1 (core MAT gene, plus strand); APN2 (conserved flank, minus strand); COX13 (conserved flank, plus strand).28 kb30 kb32 kb34 kb36 kb38 kb2.8 kb more to contig end →called locusSLA2: conserved flank, 26,777–30,629 (+), identity 87.5%, search hit onlySLA2MAT1-1-1: core MAT gene, 31,902–33,016 (-), identity 50.0%, search hit onlyMAT1-1-1MAT1-2-1: core MAT gene, 33,648–33,923 (+), identity 36.17%, search hit onlyMAT1-2-1APN2: conserved flank, 34,838–36,699 (-), identity 90.9%, search hit onlyAPN2COX13: conserved flank, 37,177–37,902 (+), identity 85.3%, search hit onlyCOX13
Gene order on SOSA01000270. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on SOSA01000270, 26,221 to 38,457EYZ11_007168 26,777-30,629 (+): Sla2 Src like adaptor 2 [Source:UniProtKB/TrEMBL;Acc:A0A4S3JDZ4]EYZ11_007168EYZ11_007178 31,902-33,016 (-): Alpha box domain-containing protein [Source:UniProtKB/TrEMBL;Acc:A0A4S3JE03]EYZ11_007178EYZ11_007169 34,838-36,699 (-): Endo/exonuclease/phosphatase domain-containing protein [Source:UniProtKB/TrEMBL;Acc:A0A4S3JDL5]EYZ11_007169EYZ11_007176 37,177-37,902 (+): Cytochrome c oxidase subunit [Source:UniProtKB/TrEMBL;Acc:A0A4S3JDX2]EYZ11_007176EYZ11_007177 38,217-39,165 (-): unspecified productEYZ11_007177
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
SOSA01000270:26,777–37,902 · 11.1 kb
Own genes
SOSA01000270:26,777–37,902 · 11.1 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
4 of 5 gene hits
Nearest contig end
3.3 kb
Region (samtools)
SOSA01000270:26777-37902
Idiomorph scores
  • MAT1-1 310.0
  • MAT1-2 42.7

Margin over the next idiomorph: 267.3

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

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
SLA2conserved flankhit onlyDIAMOND, proteome87.5cov 100.0%< 1e-1801,569 bits26,777–30,629 +–107463_unknown-1_MAT_MAT1-2EYZ11_007168
MAT1-1-1core MAThit onlyDIAMOND, proteome50.0cov 95.1%1.0e-106310 bits31,902–33,016 -–746128_a1163_MAT_MAT1-1EYZ11_007178
MAT1-2-1core MATother idiomorph, not countedhit onlytblastn36.2cov 28.0%2.9e-0443 bits33,648–33,923 +–746128_af293_MAT_MAT1-2none
APN2conserved flankhit onlyDIAMOND, proteome90.9cov 36.7%2.9e-290796 bits34,838–36,699 -–2903220_liq80xsp_MAT_combinedEYZ11_007169
COX13conserved flankhit onlyDIAMOND, proteome85.3cov 100.0%6.3e-80225 bits37,177–37,902 +–746128_af293_MAT_MAT1-2EYZ11_007176

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
MATSOSA01000768:337–2,548MAT1-2MAT1-2-11too few of the family's genes found
MATSOSA01001002:5,448–7,910MAT1-2MAT1-2-1, MAT1-2-4, CIMG_004072too few of the family's genes found

Provenance

Genome file
AtanneriNIH1004.genome.fasta
Assembly
1,715 contigs · 36.5 Mb · N50 41.2 kb
Genome SHA-256
889cedf85d6ae376db5d124c7938273775083271592d52e5c2dad94c115dcf79
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': 'species', 'routing_taxid': 1131492, '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 1131492', 'routed_by': 'family taxid 1131492 (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
2026-11-07T02:14:54Z
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