MATPredict · mating-type report

PlingamCAN1

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 02:50 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 NW_027093945MAT1-1 locus: genes from left to right on NW_027093945, 485,602 to 513,168: MAT1-1-1 (core MAT gene, plus strand); APN2 (conserved flank, minus strand); COX13 (conserved flank, plus strand); MAT1-1-4 (core MAT gene, plus strand).485 kb490 kb495 kb500 kb505 kb510 kb104.6 kb more to contig end →called locusMAT1-1-1: core MAT gene, 485,602–486,969 (+), identity 99.8%, search hit onlyMAT1-1-1APN2: conserved flank, 490,051–492,003 (-), identity 84.1%, search hit onlyAPN2COX13: conserved flank, 492,389–493,051 (+), identity 48.6%, search hit onlyCOX13MAT1-1-4: core MAT gene, 513,043–513,168 (+), identity 40.426%, search hit onlyMAT1-1-4
Gene order on NW_027093945. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on NW_027093945, 484,225 to 514,545IAQ61_008463 483,892-485,505 (+): Pyridoxamine 5'-phosphate oxidase | domain-containing proteinIAQ61_008463IAQ61_008464 485,506-487,553 (+): Mating-type protein MAT alpha 1 HMG-box | domain-containing proteinIAQ61_008464IAQ61_008465 490,051-492,003 (-): DNA-(apurinic or apyrimidinic site) endonuclease 2IAQ61_008465IAQ61_008466 492,389-493,051 (+): Cytochrome c oxidase subunit VIa | domain-containing proteinIAQ61_008466IAQ61_008467 493,268-495,618 (-): Anaphase-promoting complex subunit 5 | domain-containing proteinIAQ61_008467IAQ61_008468 496,267-497,148 (-): Complex I intermediate-associated protein 30 (CIA30) | domain-containing proteinIAQ61_008468IAQ61_008469 497,322-499,190 (+): Mitochondrial carrier protein | domain-containing proteinIAQ61_008469IAQ61_008470 499,267-500,593 (+): uncharacterized proteinIAQ61_008470IAQ61_008471 500,945-501,906 (-): Eukaryotic translation initiation factor eIF-1IAQ61_008471 SUI1IAQ61_008472 502,065-502,916 (-): PAT complex subunit Asterix | domain-containing proteinIAQ61_008472IAQ61_008473 503,682-508,764 (+): Transcription mediator complex subunit Med12 | SRB8 ARM-like domain | domain-containing proteinIAQ61_008473IAQ61_008474 509,212-510,273 (-): phosphoribosylaminoimidazolesuccinocarboxamide synthaseIAQ61_008474IAQ61_008475 510,440-512,394 (+): Autophagy-related protein 29IAQ61_008475IAQ61_008476 512,452-513,861 (+): uncharacterized proteinIAQ61_008476IAQ61_008477 513,929-515,303 (-): SUR7/PalI family | domain-containing proteinIAQ61_008477
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
Location
NW_027093945:485,602–513,168 · 27.6 kb
Own genes
NW_027093945:485,602–513,168 · 27.6 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
3 of 4 gene hits
Nearest contig end
106.0 kb
Region (samtools)
NW_027093945:485602-513168
Idiomorph scores
  • MAT1-1 754.0

No other idiomorph scored.

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

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
MAT1-1-1core MAThit onlyDIAMOND, proteome99.8cov 99.8%2.4e-279754 bits485,602–486,969 +–5022_unknown-1_MAT_MAT1-1IAQ61_008464
APN2conserved flankhit onlyDIAMOND, proteome84.1cov 36.7%8.6e-212600 bits490,051–492,003 -–2903220_liq80xsp_MAT_combinedIAQ61_008465
COX13conserved flankhit onlyDIAMOND, proteome48.6cov 97.7%3.9e-36114 bits492,389–493,051 +–578113_sxlc146_MAT_MAT1-2IAQ61_008466
MAT1-1-4core MAThit onlytblastn40.4cov 15.0%1.7e-0134 bits513,043–513,168 +–199306_rmscc1040_MAT_MAT1-1IAQ61_008476
SLA2expected, 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 (2); fewer than 2 genes could be modelled (1).

Show the 3 withheld loci

Withheld loci (3)

familylocationidiomorph genesmodelledreason
MATNW_027093966:1,022,808–1,046,629MAT1-1MAT1-1-1, SLA21fewer than 2 genes could be modelled
MATNW_027093957:1,262,981–1,265,190MAT1-2MAT1-2-11too few of the family's genes found
MATNW_027093940:733,502–748,581MAT1-2MAT1-1-1, MAT1-2-11too few of the family's genes found

Provenance

Genome file
PlingamCAN1.genome.fasta
Assembly
48 contigs · 42.0 Mb · N50 2.0 Mb
Genome SHA-256
5f78412b32687fa70b81ab7698209aa97a9602547e7ac0a27a324df5986b3337
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': 34374, '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 34374', 'routed_by': 'family taxid 34374 (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
2026-11-07T02:49:17Z
Run time
95 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