MATPredict · mating-type report

FfulvaRace5_Kim

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 02:19 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 CP090175MAT1-2 locus: genes from left to right on CP090175, 336,792 to 344,483: MAT1-2-1 (core MAT gene, minus strand); MAT1-1-3 (core MAT gene, minus strand); APN2 (conserved flank, minus strand).338 kb340 kb342 kb344 kb← 336.4 kb more to contig endcalled locusMAT1-2-1: core MAT gene, 336,792–338,101 (-), identity 74.5%, search hit onlyMAT1-2-1MAT1-1-3: core MAT gene, 337,586–337,789 (-), identity 22.059%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)APN2: conserved flank, 342,421–344,483 (-), identity 86.4%, search hit onlyAPN2
Gene order on CP090175. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on CP090175, 336,408 to 344,867CLAFUR5_14198 335,869-336,490 (+): hypothetical proteinCLAFUR5_14198CLAFUR5_14199 336,792-338,101 (-): MAT+ sexual cell fertilization-promoting factorCLAFUR5_14199CLAFUR5_14200 338,426-339,357 (+): hypothetical proteinCLAFUR5_14200CLAFUR5_14201 342,421-344,483 (-): DNA-(apurinic or apyrimidinic site) endonuclease 2CLAFUR5_14201CLAFUR5_14202 344,776-347,135 (+): Anaphase-promoting complex subunit 5CLAFUR5_14202
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
  • MAT1-1-3 is a weak hit to the other idiomorph's gene and was not counted against the call.
Location
CP090175:336,792–344,483 · 7.7 kb
Own genes
CP090175:336,792–344,483 · 7.7 kb
Locus
Provisional: the call only tied the admission bar, or came from the relaxed pass.
Genes modelled
2 of 3 gene hits
Nearest contig end
336.8 kb
Region (samtools)
CP090175:336792-344483
Idiomorph scores
  • MAT1-2 250.0

Margin over the set-aside MAT1-1-3 hit: 52.4 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
MAT1-2-174.5MAT1-1-322.1100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
MAT1-2-1core MAThit onlyDIAMOND, proteome74.5cov 23.9%9.4e-82250 bits336,792–338,101 -–1047171_ipo94269_MAT_MAT1-2CLAFUR5_14199
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlytblastn22.1cov 34.0%7.6e-0127 bits337,586–337,789 -–5518_3639_MAT_combinedCLAFUR5_14199
APN2conserved flankhit onlyDIAMOND, proteome86.4cov 36.7%6.2e-280773 bits342,421–344,483 -–2903220_liq80xsp_MAT_combinedCLAFUR5_14201
SLA2expected, not found–
COX13expected, not found–

Withheld candidate loci 6

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 (6).

Show the 6 withheld loci

Withheld loci (6)

familylocationidiomorph genesmodelledreason
MATCP090163:5,691,784–5,693,411MAT1-2MAT1-2-11too few of the family's genes found
MATCP090163:7,136,848–7,139,197MAT1-2MAT1-2-11too few of the family's genes found
MATCP090170:4,289,030–4,290,955MAT1-1MAT1-1-1, MAT1-2-11too few of the family's genes found
MATCP090175:927,502–928,274undeterminedCOX131too few of the family's genes found
MATCP090175:1,772,690–1,776,089undeterminedSLA21too few of the family's genes found
MATCP090167:1,279,059–1,280,817MAT1-2MAT1-1-1, MAT1-2-12too few of the family's genes found

Provenance

Genome file
FfulvaRace5_Kim.genome.fasta
Assembly
14 contigs · 67.2 Mb · N50 5.8 Mb
Genome SHA-256
4c37e767958b57a70e0870b052c4a3c2bdac8f4e896402478b45ac9d0197ff72
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': 93133, '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 93133', 'routed_by': 'family taxid 93133 (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
2026-11-07T02:17:48Z
Run time
131 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