MATPredict · mating-type report

AsydowiiCBS593.65

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 02:34 UTC by MATPredict 0.8.1

Result

Mating type

MAT1-2medium confidence

Called loci 1

MAT1-2 MAT family · Ascomycota

medium confidence
Gene order of the MAT1-2 locus on KV878584MAT1-2 locus: genes from left to right on KV878584, 2,682,862 to 2,725,648: MAT1-2-10 (core MAT gene, minus strand); 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); MAT1-2-4 (core MAT gene, plus strand); CIMG_00407 (core MAT gene, plus strand); SLA2 (conserved flank, minus strand).2,690 kb2,700 kb2,710 kb2,720 kb854.9 kb more to contig end →called locusMAT1-2-10: core MAT gene, 2,682,862–2,683,041 (-), identity 29.032%, search hit onlyMAT1-2-10COX13: conserved flank, 2,706,376–2,709,436 (-), identity 88.2%, search hit onlyCOX13APN2: conserved flank, 2,709,746–2,711,878 (+), identity 90.9%, search hit onlyAPN2MAT1-1-3: core MAT gene, 2,716,850–2,717,911 (-), identity 39.0%, search hit onlyMAT1-1-3 (lost to MAT1-2-1)MAT1-2-1: core MAT gene, 2,716,850–2,717,911 (-), identity 71.4%, search hit onlyMAT1-2-1MAT1-2-4: core MAT gene, 2,718,441–2,719,330 (+), identity 46.2%, search hit onlyMAT1-2-4CIMG_00407: core MAT gene, 2,719,045–2,719,155 (+), identity 51.351%, search hit onlyCIMG_00407SLA2: conserved flank, 2,721,754–2,725,648 (-), identity 90.8%, search hit onlySLA2
Gene order on KV878584. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on KV878584, 2,680,722 to 2,727,789ASPSYDRAFT_147033 2,680,716-2,683,179 (-): putative Rho GTPase activator (Rgd1)ASPSYDRAFT_147033 rgd1ASPSYDRAFT_147413 2,683,936-2,686,395 (+): Fungal specific transcription factor domain | domain-containing proteinASPSYDRAFT_147413ASPSYDRAFT_822203 2,687,526-2,688,572 (+): Ras family | domain-containing proteinASPSYDRAFT_822203ASPSYDRAFT_43270 2,689,211-2,690,370 (-): Translation initiation factor SUI1 | domain-containing proteinASPSYDRAFT_43270ASPSYDRAFT_824081 2,692,318-2,693,744 (+): hypothetical proteinASPSYDRAFT_824081ASPSYDRAFT_56663 2,694,158-2,699,389 (+): SRB8 ARM-like domain | Transcription mediator complex subunit Med12 | domain-containing proteinASPSYDRAFT_56663ASPSYDRAFT_822038 2,699,992-2,700,976 (-): RNA recognition motif | domain-containing proteinASPSYDRAFT_822038ASPSYDRAFT_822037 2,700,978-2,701,487 (+): hypothetical proteinASPSYDRAFT_822037ASPSYDRAFT_87877 2,701,675-2,702,847 (+): Complex I intermediate-associated protein 30 (CIA30) | domain-containing proteinASPSYDRAFT_87877ASPSYDRAFT_147430 2,702,970-2,704,054 (-): phosphoribosylaminoimidazolesuccinocarboxamide synthaseASPSYDRAFT_147430ASPSYDRAFT_824362 2,704,159-2,706,184 (-): Cryptococcal mannosyltransferase 1 | domain-containing proteinASPSYDRAFT_824362ASPSYDRAFT_146414 2,706,376-2,709,436 (-): Cytochrome c oxidase subunit VIa | FAD binding domain | domain-containing proteinASPSYDRAFT_146414ASPSYDRAFT_87882 2,709,746-2,711,878 (+): DNA-(apurinic or apyrimidinic site) endonuclease 2ASPSYDRAFT_87882ASPSYDRAFT_56669 2,712,942-2,715,553 (-): Anaphase-promoting complex subunit 5 | domain-containing proteinASPSYDRAFT_56669ASPSYDRAFT_87884 2,716,850-2,717,911 (-): HMG (high mobility group) box | domain-containing proteinASPSYDRAFT_87884ASPSYDRAFT_824807 2,718,309-2,719,631 (+): hypothetical proteinASPSYDRAFT_824807ASPSYDRAFT_43291 2,721,361-2,725,887 (-): I/LWEQ domain | ANTH domain | domain-containing proteinASPSYDRAFT_43291ASPSYDRAFT_87887 2,726,400-2,729,237 (-): Pleckstrin homology domain | domain-containing proteinASPSYDRAFT_87887
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
  • MAT1-1-3 is a weak hit to the other idiomorph's gene and was not counted against the call.
Location
KV878584:2,682,862–2,725,648 · 42.8 kb
Own genes
KV878584:2,682,862–2,725,648 · 42.8 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
5 of 8 gene hits
Nearest contig end
857.0 kb
Region (samtools)
KV878584:2682862-2725648
Idiomorph scores
  • MAT1-2 428.0

Margin over the set-aside MAT1-1-3 hit: 32.4 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
MAT1-2-171.4MAT1-1-339.0100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
MAT1-2-10core MAThit onlytblastn29.0cov 22.0%5.4e+0029 bits2,682,862–2,683,041 -–5180_44ba1_MAT_combinedASPSYDRAFT_147033 rgd1
COX13conserved flankhit onlyDIAMOND, proteome88.2cov 88.1%4.8e-66207 bits2,706,376–2,709,436 -–162425_fgsc-a4_MAT_combinedASPSYDRAFT_146414
APN2conserved flankhit onlyDIAMOND, proteome90.9cov 36.7%< 1e-180917 bits2,709,746–2,711,878 +–2903220_liq80xsp_MAT_combinedASPSYDRAFT_87882
MAT1-1-3core MATother idiomorph, not countedlost to MAT1-2-1, not countedhit onlyDIAMOND, proteome39.0cov 42.8%1.8e-1566 bits2,716,850–2,717,911 -–230073_uamh-1363_MAT_MAT1-1ASPSYDRAFT_87884
MAT1-2-1core MAThit onlyDIAMOND, proteome71.4cov 100.0%2.8e-154428 bits2,716,850–2,717,911 -–162425_fgsc-a4_MAT_combinedASPSYDRAFT_87884
MAT1-2-4core MAThit onlyDIAMOND, proteome46.2cov 94.4%9.2e-70208 bits2,718,441–2,719,330 +–746128_af293_MAT_MAT1-2ASPSYDRAFT_824807
CIMG_00407core MAThit onlytblastn51.4cov 14.0%8.0e-1043 bits2,719,045–2,719,155 +–5501_rs_MAT_MAT1-2ASPSYDRAFT_824807
SLA2conserved flankhit onlyDIAMOND, proteome90.8cov 100.0%< 1e-1801,565 bits2,721,754–2,725,648 -–1301501_voucher-215_MAT_MAT1-1ASPSYDRAFT_43291

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
MATKV878582:2,973,082–2,976,643MAT1-2MAT1-2-1, CIMG_004071too few of the family's genes found
MATKV878588:460,315–461,897MAT1-1MAT1-1-31too few of the family's genes found

Provenance

Genome file
AsydowiiCBS593.65.genome.fasta
Assembly
97 contigs · 34.4 Mb · N50 2.3 Mb
Genome SHA-256
e695184962bed6c0cc5b5bd4ace8a086849c8ab2730974ad9a37a7b128014b1b
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': 1131492, 'routing_taxid_rank': 'family', 'flags': ['identical_to_reference'], '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 1131492', 'routed_by': 'family taxid 1131492 (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
2026-11-07T02:32:46Z
Run time
74 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