MATPredict · mating-type report

FproliferatumNRRL62905

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 02:12 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-2high confidence

Called loci 1

MAT1-2 MAT family · Ascomycota

high confidence
Gene order of the MAT1-2 locus on FCQG01000035MAT1-2 locus: genes from left to right on FCQG01000035, 218,877 to 232,147: COX13 (conserved flank, minus strand); APN2 (conserved flank, plus strand); MAT1-1-3 (core MAT gene, minus strand); MAT1-2-1 (core MAT gene, minus strand); SLA2 (conserved flank, minus strand).220 kb225 kb230 kb← 218.2 kb more to contig endcalled locusCOX13: conserved flank, 218,877–219,638 (-), identity 70.7%, search hit onlyCOX13APN2: conserved flank, 220,146–222,159 (+), identity 86.4%, search hit onlyAPN2MAT1-1-3: core MAT gene, 222,923–223,697 (-), identity 40.3%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 222,923–223,697 (-), identity 88.8%, search hit onlyMAT1-2-1SLA2: conserved flank, 228,566–232,147 (-), identity 81.6%, search hit onlySLA2
Gene order on FCQG01000035. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on FCQG01000035, 218,214 to 232,809FPRN_08845 218,877-219,638 (-): related to cytochrome-c oxidase chain VIa precursorFPRN_08845FPRN_08844 220,146-222,159 (+): related to APN2-AP endonuclease, exonuclease III homologFPRN_08844FPRN_08843 222,923-223,697 (-): mating type proteinFPRN_08843FPRN_08842 225,234-226,044 (+): uncharacterized proteinFPRN_08842FPRN_08841 228,566-232,147 (-): probable cytoskeleton assembly control protein SLA2FPRN_08841
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
  • MAT1-1-3 is a weak hit to the other idiomorph's gene and was not counted against the call.
Location
FCQG01000035:218,877–232,147 · 13.3 kb
Own genes
FCQG01000035:218,877–232,147 · 13.3 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
4 of 5 gene hits
Nearest contig end
218.9 kb
Region (samtools)
FCQG01000035:218877-232147
Idiomorph scores
  • MAT1-2 395.0

Margin over the set-aside MAT1-1-3 hit: 48.5 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
MAT1-2-188.8MAT1-1-340.3100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
COX13conserved flankhit onlyDIAMOND, proteome70.7cov 89.2%2.3e-63182 bits218,877–219,638 -–578113_sxlc146_MAT_MAT1-2FPRN_08845
APN2conserved flankhit onlyDIAMOND, proteome86.4cov 36.7%1.3e-219614 bits220,146–222,159 +–2903220_liq80xsp_MAT_combinedFPRN_08844
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome40.3cov 40.0%1.8e-1359 bits222,923–223,697 -–230073_uamh-1363_MAT_MAT1-1FPRN_08843
MAT1-2-1core MAThit onlyDIAMOND, proteome88.8cov 100.0%2.8e-144395 bits222,923–223,697 -–5127_mo45_MAT_MAT1-2FPRN_08843
SLA2conserved flankhit onlyDIAMOND, proteome81.6cov 100.0%< 1e-1801,372 bits228,566–232,147 -–107463_unknown-1_MAT_MAT1-2FPRN_08841

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
MATFCQG01000003:1,521,258–1,523,439MAT1-2MAT1-2-11too few of the family's genes found
MATFCQG01000036:430,002–431,593MAT1-2MAT1-2-11too few of the family's genes found

Provenance

Genome file
FproliferatumNRRL62905.genome.fasta
Assembly
155 contigs · 43.2 Mb · N50 874.5 kb
Genome SHA-256
c76c78fe2208004abf55de6c17ffed304df52b8c4ebe9e9123caa8f48bf324bc
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
2026-11-07T02:10:49Z
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