MATPredict · mating-type report

FodoratissimumNRRL54006

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 02:28 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 JH658294.1MAT1-1 locus: genes from left to right on JH658294.1, 286,630 to 300,779: SLA2 (conserved flank, plus strand); MAT1-1-1 (core MAT gene, minus strand); MAT1-2-7 (core MAT gene, minus strand); MAT1-1-2 (core MAT gene, minus strand); MAT1-1-3 (core MAT gene, plus strand); MAT1-2-1 (core MAT gene, plus strand); APN2 (conserved flank, minus strand); COX13 (conserved flank, plus strand).290 kb295 kb300 kb221.4 kb more to contig end →called locusSLA2: conserved flank, 286,630–290,197 (+), identity 81.6%, search hit onlySLA2MAT1-1-1: core MAT gene, 292,663–293,814 (-), identity 99.1%, search hit onlyMAT1-1-1MAT1-2-7: core MAT gene, 293,275–293,493 (-), identity 30.38%, search hit onlyMAT1-2-7 (lost to MAT1-1-1)MAT1-1-2: core MAT gene, 294,258–295,606 (-), identity 79.1%, search hit onlyMAT1-1-2MAT1-1-3: core MAT gene, 296,005–296,754 (+), identity 82.6%, search hit onlyMAT1-1-3MAT1-2-1: core MAT gene, 296,459–296,569 (+), identity 43.243%, search hit onlyMAT1-2-1 (lost to MAT1-1-3)APN2: conserved flank, 297,265–299,497 (-), identity 86.4%, search hit onlyAPN2COX13: conserved flank, 300,018–300,779 (+), identity 69.8%, search hit onlyCOX13
Gene order on JH658294.1. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on JH658294.1, 285,924 to 301,486FOIG_12012 286,299-290,766 (+): I/LWEQ domain | ANTH domain | domain-containing proteinFOIG_12012FOIG_12013 291,509-292,216 (+): unspecified productFOIG_12013FOIG_12014 292,663-293,814 (-): Mating-type protein MAT alpha 1 HMG-box | domain-containing proteinFOIG_12014FOIG_12015 294,258-295,606 (-): Mating type protein 1-1-2 of unknown function | domain-containing proteinFOIG_12015FOIG_12016 296,005-296,754 (+): HMG (high mobility group) box | domain-containing proteinFOIG_12016FOIG_12017 297,076-299,807 (-): DNA-(apurinic or apyrimidinic site) endonuclease 2FOIG_12017FOIG_12018 299,925-301,095 (+): Cytochrome c oxidase subunit VIa | domain-containing proteinFOIG_12018FOIG_12019 301,190-305,343 (+): Anaphase-promoting complex subunit 5 | domain-containing proteinFOIG_12019
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
  • MAT1-2-1 is a weak hit to the other idiomorph's gene and was not counted against the call.
  • MAT1-2-7 is a weak hit to the other idiomorph's gene and was not counted against the call.
Location
JH658294.1:286,630–300,779 · 14.2 kb
Own genes
JH658294.1:286,630–300,779 · 14.2 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
6 of 8 gene hits
Nearest contig end
222.1 kb
Region (samtools)
JH658294.1:286630-300779
Idiomorph scores
  • MAT1-1 683.0

Margin over the set-aside MAT1-2-1 hit: 39.4 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
MAT1-1-199.1MAT1-2-730.4100.0higher identity
MAT1-1-382.6MAT1-2-143.2100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
SLA2conserved flankhit onlyDIAMOND, proteome81.6cov 100.0%< 1e-1801,372 bits286,630–290,197 +–107463_unknown-1_MAT_MAT1-2FOIG_12012
MAT1-1-1core MAThit onlyDIAMOND, proteome99.1cov 95.8%9.0e-254683 bits292,663–293,814 -–59765_880621a-1_MAT_MAT1-1FOIG_12014
MAT1-2-7core MATother idiomorph, not countedlost to MAT1-1-1, not countedhit onlytblastn30.4cov 39.0%4.2e-0235 bits293,275–293,493 -–5158_cbs114723_MAT_unswitchedFOIG_12014
MAT1-1-2core MAThit onlyDIAMOND, proteome79.1cov 98.3%7.4e-236643 bits294,258–295,606 -–5127_mo44_MAT_MAT1-1FOIG_12015
MAT1-1-3core MAThit onlyDIAMOND, proteome82.6cov 88.9%6.5e-91257 bits296,005–296,754 +–5127_mo44_MAT_MAT1-1FOIG_12016
MAT1-2-1core MATother idiomorph, not countedlost to MAT1-1-3, not countedhit onlytblastn43.2cov 10.0%9.7e-0747 bits296,459–296,569 +–28548_06cwm-g22_MAT_combinedFOIG_12016
APN2conserved flankhit onlyDIAMOND, proteome86.4cov 36.7%2.7e-226636 bits297,265–299,497 -–2903220_liq80xsp_MAT_combinedFOIG_12017
COX13conserved flankhit onlyDIAMOND, proteome69.8cov 89.2%9.2e-63181 bits300,018–300,779 +–578113_sxlc146_MAT_MAT1-2FOIG_12018

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
MATJH658272.1:1,308,828–1,310,419MAT1-2MAT1-2-11too few of the family's genes found
MATJH658275.1:870,491–872,660MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
FodoratissimumNRRL54006.genome.fasta
Assembly
418 contigs · 46.6 Mb · N50 1.1 Mb
Genome SHA-256
915fb0a54f3d3741134056b98736672131cdc3200613d7b38ac7b65de5af48ea
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
2026-11-07T02:27:21Z
Run time
77 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