MATPredict · mating-type report

CtetragattiiIND107

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

alphamedium confidence

Called loci 1

alpha MAT family · Basidiomycota

medium confidence
Gene order of the alpha locus on KN848863alpha locus: genes from left to right on KN848863, 503,752 to 608,408: PAN6 (conserved flank, minus strand); RPL39 (core MAT gene, plus strand); MFalpha (core MAT gene, minus strand); MFa (core MAT gene, plus strand); STE3 (core MAT gene, minus strand); SXI1 (core MAT gene, minus strand); FAO1 (conserved flank, minus strand).500 kb520 kb540 kb560 kb580 kb600 kb133.7 kb more to contig end →called locusPAN6: conserved flank, 503,752–505,440 (-), identity 90.5%, search hit onlyPAN6RPL39: core MAT gene, 517,179–517,678 (+), identity 100.0%, search hit onlyRPL39MFalpha: core MAT gene, 524,630–524,746 (-), identity 94.7%, search hit onlyMFalphaMFa: core MAT gene, 525,516–525,629 (+), identity 54.762%, search hit onlyMFa (lost to MFalpha)STE3: core MAT gene, 541,501–542,819 (-), identity 90.5%, search hit onlySTE3SXI1: core MAT gene, 604,896–606,254 (-), identity 70.0%, search hit onlySXI1FAO1: conserved flank, 607,061–608,408 (-), identity 90.2%, search hit onlyFAO1
Gene order on KN848863. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on KN848863, 498,523 to 613,638I308_03655 495,457-498,529 (+): autophagy-like protein 9I308_03655I308_03656 499,015-499,239 (-): hypothetical proteinI308_03656I308_03657 499,559-499,981 (+): Heat shock protein 9/12 | domain-containing proteinI308_03657I308_03658 500,925-503,550 (+): hypothetical proteinI308_03658I308_03659 503,752-505,440 (-): pantoate-beta-alanine ligaseI308_03659I308_03660 505,767-508,599 (-): nucleolar GTP-binding protein 2I308_03660I308_03661 508,750-509,119 (+): hypothetical proteinI308_03661I308_03662 509,212-510,253 (-): hypothetical proteinI308_03662I308_03663 514,333-514,646 (+): hypothetical proteinI308_03663I308_03664 517,179-517,678 (+): 60S ribosomal protein L39I308_03664I308_03665 518,803-520,165 (-): hypothetical proteinI308_03665I308_03666 524,630-524,746 (-): fungal mating-type pheromoneI308_03666I308_03667 525,860-525,898 (+): hypothetical proteinI308_03667I308_03668 528,378-531,916 (+): BAH domain | PHD-finger | PHD-zinc-finger like domain | domain-containing proteinI308_03668I308_03669 532,057-534,719 (-): eukaryotic translation initiation factor 3 subunit BI308_03669I308_03670 535,765-535,881 (-): fungal mating-type pheromoneI308_03670I308_03671 536,651-536,767 (+): fungal mating-type pheromoneI308_03671I308_03672 537,926-540,589 (-): IKS protein kinaseI308_03672I308_03673 541,501-542,819 (-): pheromone a factor receptorI308_03673I308_03674 544,085-545,511 (+): electron transfer flavoprotein alpha subunitI308_03674I308_03675 548,478-550,833 (+): STE/STE20/PAKA protein kinaseI308_03675I308_03676 551,434-557,255 (-): DIL domain | Myosin head (motor domain) | IQ calmodulin-binding motif | domain-containing proteinI308_03676I308_03677 558,242-562,227 (+): STE/STE11 protein kinaseI308_03677I308_03678 562,664-566,671 (-): DNA-directed RNA polymerase, mitochondrialI308_03678I308_03679 567,293-570,011 (+): hypothetical proteinI308_03679I308_03680 571,385-571,639 (-): hypothetical proteinI308_03680I308_03681 572,663-575,614 (-): polynucleotide adenylyltransferaseI308_03681I308_03682 577,418-579,660 (+): Glycosyl transferase family 90 | domain-containing proteinI308_03682I308_03683 580,948-586,523 (+): phospholipase DI308_03683I308_03684 587,738-590,911 (-): RhoGEF domain | domain-containing proteinI308_03684I308_03685 591,802-594,558 (-): Structure-specific endonuclease subunit SLX4I308_03685I308_03686 595,442-601,418 (-): histone demethylase JARID1I308_03686I308_03687 602,248-602,558 (+): Vacuolar protein sorting-associated protein 26 | domain-containing proteinI308_03687I308_03688 602,866-603,467 (-): 50S small subunit ribosomal protein L22eI308_03688I308_03689 604,896-606,254 (-): Homeobox KN domain | domain-containing proteinI308_03689I308_03690 607,061-608,408 (-): 2OG-Fe(II) oxygenase superfamily | non-haem dioxygenase in morphine synthesis N-terminal | domain-containing proteinI308_03690I308_03691 608,979-610,059 (+): Cytidine and deoxycytidylate deaminase zinc-binding region | domain-containing proteinI308_03691I308_03692 610,987-613,155 (+): NCS2 family nucleobase:cation symporter-2I308_03692
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
KN848863:503,752–608,408 · 104.7 kb
Own genes
KN848863:503,752–608,408 · 104.7 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
6 of 7 gene hits
Nearest contig end
138.9 kb
Region (samtools)
KN848863:503752-608408
Idiomorph scores
  • alpha 526.0
  • a 40.4

Margin over the next idiomorph: 485.6

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
MFalpha94.7MFa54.8100.0higher identity
MFalpha94.7MFa54.8100.0higher identity
MFalpha94.7MFa54.8100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
PAN6conserved flankhit onlyDIAMOND, proteome90.5cov 100.0%7.4e-267717 bits503,752–505,440 -–40410_jec20_MAT_aI308_03659
RPL39core MAThit onlyDIAMOND, proteome100.0cov 100.0%2.1e-35103 bits517,179–517,678 +–40410_jec20_MAT_aI308_03664
MFalphacore MAThit onlyDIAMOND, proteome94.7cov 100.0%3.1e-2372 bits524,630–524,746 -–40410_jec21_MAT_alphaI308_03666
MFacore MATlost to MFalpha, not countedhit onlytblastn54.8cov 100.0%2.1e-0640 bits525,516–525,629 +–40410_jec20_MAT_anone
STE3core MAThit onlyDIAMOND, proteome90.5cov 100.0%2.5e-262704 bits541,501–542,819 -–40410_jec21_MAT_alphaI308_03673
SXI1core MAThit onlyDIAMOND, proteome70.0cov 100.0%1.8e-191526 bits604,896–606,254 -–40410_jec21_MAT_alphaI308_03689
FAO1conserved flankhit onlyDIAMOND, proteome90.2cov 100.0%3.8e-238639 bits607,061–608,408 -–40410_jec20_MAT_aI308_03690
NOG2not searchable: no reference protein in the database–
UAP1not searchable: no reference protein in the database–

Withheld candidate loci 1

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 (1).

Show the 1 withheld locus

Withheld loci (1)

familylocationidiomorph genesmodelledreason
MATKN848865:363,177–364,606undeterminedSTE31too few of the family's genes found

Provenance

Genome file
CtetragattiiIND107.genome.fasta
Assembly
34 contigs · 17.6 Mb · N50 803.7 kb
Genome SHA-256
f8e15be7b643bc738bc58c9a539284a180a9443187ae00fef2b77a33a285a8a4
MATPredict
0.8.1 (v0.8.1, 3a62e6302b)
Database
86f18d232e4fe95d · 185 records
Taxonomy
local NCBI taxonomy snapshot 2026-10-01
Parameters
phylum=Basidiomycota, phylum_guess={'requested': 'auto', 'status': 'ok', 'usable': True, 'reason': None, 'phylum': 'Basidiomycota', 'phylum_taxid': 5204, 'deepest_rank': 'species', 'routing_taxid': 1884633, '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 Basidiomycota', 'action': 'routed', 'weak_call_accepted': False, 'genetic_code': 1, 'genetic_code_from': 'family taxid 1884633', 'routed_by': 'family taxid 1884633 (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, supported_min_bitscore=33.0
Run started
2026-11-07T02:16:30Z
Run time
21 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