MATPredict · mating-type report

BpercursusEI222

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 02:16 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 LGTZ01000063MAT1-2 locus: genes from left to right on LGTZ01000063, 22,359 to 31,845: SLA2 (conserved flank, plus strand); 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).22 kb24 kb26 kb28 kb30 kb32 kb1.5 kb more to contig end →called locusSLA2: conserved flank, 22,359–26,320 (+), identity 89.6%, search hit onlySLA2CIMG_00407: core MAT gene, 29,259–29,878 (-), identity 41.25%, gene modelCIMG_00407MAT1-2-4: core MAT gene, 29,382–29,537 (-), identity 44.231%, search hit onlyMAT1-2-4MAT1-1-3: core MAT gene, 30,703–31,845 (+), identity 39.0%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 30,703–31,845 (+), identity 52.1%, search hit onlyMAT1-2-1
Gene order on LGTZ01000063. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on LGTZ01000063, 21,885 to 32,319ACJ73_00815 22,359-26,320 (+): unspecified productACJ73_00815ACJ73_00816 29,208-30,148 (-): unspecified productACJ73_00816ACJ73_00817 30,703-31,845 (+): HMG box domain-containing protein [Source:UniProtKB/TrEMBL;Acc:A0A1J9QI71]ACJ73_00817
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
  • gene model
  • search hit only
  • MAT1-1-3 is a weak hit to the other idiomorph's gene and was not counted against the call.
Location
LGTZ01000063:22,359–31,845 · 9.5 kb
Own genes
LGTZ01000063:22,359–31,845 · 9.5 kb
Locus
Provisional: the call only tied the admission bar, or came from the relaxed pass.
Genes modelled
3 of 5 gene hits
Nearest contig end
1.9 kb
Region (samtools)
LGTZ01000063:22359-31845
Idiomorph scores
  • MAT1-2 303.0

Margin over the set-aside MAT1-1-3 hit: 13.1 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
MAT1-2-152.1MAT1-1-339.0100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
SLA2conserved flankhit onlyDIAMOND, proteome89.6cov 82.2%< 1e-1801,563 bits22,359–26,320 +–107463_unknown-1_MAT_MAT1-2ACJ73_00815
CIMG_00407core MATgene modelexonerate41.2cov 62.4%4.5e-3083 bits29,259–29,878 -35501_rs_MAT_MAT1-2ACJ73_00816
MAT1-2-4core MAThit onlytblastn44.2cov 21.0%1.9e-0950 bits29,382–29,537 -–746128_af293_MAT_MAT1-2ACJ73_00816
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome39.0cov 45.6%1.4e-1258 bits30,703–31,845 +–230073_uamh-1363_MAT_MAT1-1ACJ73_00817
MAT1-2-1core MAThit onlyDIAMOND, proteome52.1cov 64.5%3.1e-104303 bits30,703–31,845 +–162425_fgsc-a4_MAT_combinedACJ73_00817
APN2expected, not found–
COX13expected, not found–

Withheld candidate loci 3

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).

Show the 3 withheld loci

Withheld loci (3)

familylocationidiomorph genesmodelledreason
MATLGTZ01000086:2,216–5,730undeterminedAPN2, COX132too few of the family's genes found
MATLGTZ01000760:7,588–9,919MAT1-2MAT1-2-11too few of the family's genes found
MATLGTZ01001485:4,772–6,494MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
BpercursusEI222.genome.fasta
Assembly
3,868 contigs · 32.3 Mb · N50 12.8 kb
Genome SHA-256
aa0d90876f652cb682e8b793491e68effc5b96fb1891a736bdf39b74ee4314b6
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': 299071, '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 299071', 'routed_by': 'family taxid 299071 (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
2026-11-07T02:15:18Z
Run time
72 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