MATPredict · mating-type report

KmangroviensisCBS8507

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 02:45 UTC by MATPredict 0.8.1

Result

Mating type

alphahigh confidence

Called loci 1

alpha MAT family · Basidiomycota

high confidence
Gene order of the alpha locus on KI669474alpha locus: genes from left to right on KI669474, 1,507,734 to 1,609,942: RPL39 (core MAT gene, plus strand); STE3 (core MAT gene, minus strand); MFa (core MAT gene, minus strand); MFalpha (core MAT gene, minus strand); PAN6 (conserved flank, minus strand); FAO1 (conserved flank, plus strand).1,520 kb1,540 kb1,560 kb1,580 kb1,600 kb328.7 kb more to contig end →called locusRPL39: core MAT gene, 1,507,734–1,508,118 (+), identity 93.88%, the two modelling tools disagreeRPL39STE3: core MAT gene, 1,526,084–1,526,956 (-), identity 56.4%, search hit onlySTE3MFa: core MAT gene, 1,536,203–1,536,319 (-), identity 47.619%, search hit onlyMFa (lost to MFalpha)MFalpha: core MAT gene, 1,536,203–1,536,319 (-), identity 63.16%, gene modelMFalphaPAN6: conserved flank, 1,565,452–1,567,077 (-), identity 60.7%, search hit onlyPAN6FAO1: conserved flank, 1,608,388–1,609,942 (+), identity 28.9%, search hit onlyFAO1
Gene order on KI669474. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on KI669474, 1,502,627 to 1,615,047I203_02299 1,500,885-1,502,834 (+): unspecified productI203_02299I203_02300 1,503,454-1,506,461 (-): Fungal Zn(2)-Cys(6) binuclear cluster domain | Fungal specific transcription factor domain | domain-containing proteinI203_02300I203_02301 1,508,617-1,512,154 (-): BTB/POZ domain | domain-containing proteinI203_02301I203_02302 1,512,646-1,514,898 (-): kinetochore protein NDC80I203_02302I203_02303 1,515,385-1,517,897 (-): STE/STE20/PAKA protein kinaseI203_02303I203_02304 1,518,453-1,522,908 (-): C2 domain | MUN domain | domain-containing proteinI203_02304I203_02305 1,523,424-1,525,962 (+): E1-like protein-activating enzyme Gsa7p/Apg7pI203_02305I203_02306 1,526,084-1,526,956 (-): Pheromone A receptor | domain-containing proteinI203_02306I203_02307 1,528,041-1,531,245 (+): STE like transcription factor | Zinc finger, C2H2 type | domain-containing proteinI203_02307I203_02308 1,531,508-1,532,821 (-): pre-60S factor REI1I203_02308I203_02309 1,533,187-1,535,738 (+): DBP10CT (NUC160) domain | Helicase conserved C-terminal domain | DEAD/DEAH box helicase | domain-containing proteinI203_02309I203_02310 1,537,319-1,540,146 (-): ubiquitinyl hydrolase 1I203_02310I203_02311 1,540,501-1,541,162 (-): RNA recognition motif | domain-containing proteinI203_02311I203_02312 1,542,705-1,549,730 (+): chitin synthaseI203_02312I203_02313 1,550,508-1,552,055 (-): Maintenance of mitochondrial morphology protein 1 | domain-containing proteinI203_02313I203_02314 1,552,623-1,555,454 (-): unspecified productI203_02314I203_02315 1,557,766-1,558,292 (-): Heat shock protein 9/12 | domain-containing proteinI203_02315I203_02316 1,559,392-1,562,081 (-): unspecified productI203_02316I203_02317 1,562,436-1,565,242 (+): ATPaseI203_02317I203_02318 1,565,452-1,567,077 (-): pantoate-beta-alanine ligaseI203_02318I203_02319 1,567,481-1,569,891 (+): U4/U6 small nuclear ribonucleoprotein PRP4I203_02319I203_02320 1,570,330-1,573,830 (-): KilA-N domain | Ankyrin repeat | domain-containing proteinI203_02320I203_02321 1,574,322-1,575,882 (+): ribosomal RNA assembly proteinI203_02321I203_02322 1,576,298-1,578,171 (-): serine/threonine-protein phosphatase 6 catalytic subunitI203_02322I203_02323 1,578,657-1,580,100 (+): unspecified productI203_02323I203_02324 1,580,480-1,584,853 (-): Calcium-dependent channel, 7TM region, putative phosphate | domain-containing proteinI203_02324I203_02325 1,586,375-1,590,489 (-): ATP-dependent RNA helicase DOB1I203_02325I203_02326 1,590,816-1,591,879 (+): mitochondrial import inner membrane translocase subunitI203_02326I203_02327 1,592,277-1,594,364 (-): unspecified productI203_02327I203_02328 1,594,401-1,595,307 (-): unspecified productI203_02328I203_02329 1,595,790-1,596,670 (-): unspecified productI203_02329I203_02330 1,597,025-1,602,113 (+): Autophagy-related protein 11 | Autophagy protein ATG17-like domain | domain-containing proteinI203_02330I203_02331 1,602,515-1,605,141 (-): DNA polymerase III subunit epsilon-like, C-terminal domain | domain-containing proteinI203_02331I203_02332 1,605,497-1,607,979 (+): endoplasmic reticulum proteinI203_02332I203_02333 1,608,388-1,609,942 (+): 2OG-Fe(II) oxygenase superfamily | non-haem dioxygenase in morphine synthesis N-terminal | domain-containing proteinI203_02333I203_02334 1,610,210-1,614,913 (-): unspecified productI203_02334
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
  • gene model
  • tools disagree
  • alternate model
  • search hit only
  • MFa is a weak hit to the other idiomorph's gene and was not counted against the call.
Location
KI669474:1,507,734–1,609,942 · 102.2 kb
Own genes
KI669474:1,507,734–1,609,942 · 102.2 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
5 of 6 gene hits
Nearest contig end
333.8 kb
Region (samtools)
KI669474:1507734-1609942
Idiomorph scores
  • alpha 51.2

Margin over the set-aside MFa hit: 13.9 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
MFalpha61.5MFa47.6100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
RPL39core MATmodels differexonerateminiprot: 1,507,734–1,508,121, 88.0%93.9cov 98.0%3.1e-1464 bits1,507,734–1,508,118 +340410_jec20_MAT_anone
STE3core MAThit onlyDIAMOND, proteome56.4cov 67.1%3.7e-95275 bits1,526,084–1,526,956 -–40410_jec21_MAT_alphaI203_02306
MFacore MATother idiomorph, not countedlost to MFalpha, not countedhit onlytblastn47.6cov 100.0%6.5e-0434 bits1,536,203–1,536,319 -–40410_jec20_MAT_anone
MFalphacore MATgene modelexonerate63.2cov 100.0%3.7e-1051 bits1,536,203–1,536,319 -140410_jec21_MAT_alphanone
PAN6conserved flankhit onlyDIAMOND, proteome60.7cov 95.6%2.0e-162451 bits1,565,452–1,567,077 -–40410_jec20_MAT_aI203_02318
FAO1conserved flankhit onlyDIAMOND, proteome28.9cov 91.4%4.1e-2697 bits1,608,388–1,609,942 +–40410_jec21_MAT_alphaI203_02333
NOG2not searchable: no reference protein in the database–
UAP1not searchable: no reference protein in the database–

Withheld candidate loci 4

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 (4).

Show the 4 withheld loci

Withheld loci (4)

familylocationidiomorph genesmodelledreason
MATKI669472:1,767,602–1,769,019undeterminedFAO11too few of the family's genes found
MATKI669478:599,389–600,802undeterminedFAO11too few of the family's genes found
MATKI669481:640,367–642,127undeterminedSTE31too few of the family's genes found
MATKV700051:297,173–326,810alphaFAO1, SXI1, SXI23too few of the family's genes found

Provenance

Genome file
KmangroviensisCBS8507.genome.fasta
Assembly
62 contigs · 22.7 Mb · N50 1.0 Mb
Genome SHA-256
b153169c1088cd4424c38ab1bce4a109b3607495000dadf372bf71eee66a33cf
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
2026-11-07T02:45:19Z
Run time
36 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