MATPredict · mating-type report

MguilliermondiiATCC6260

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 01:51 UTC by MATPredict 0.8.1

Result

Mating type

Amedium confidence

Called loci 1

A MTL family · Ascomycota

medium confidence
Gene order of the A locus on CH408158A locus: genes from left to right on CH408158, 250,872 to 257,936: PAP1 (variable flank, minus strand); OBP1 (variable flank, plus strand); PIK1 (variable flank, plus strand); MTLA2 (core MAT gene, plus strand).252 kb254 kb256 kb258 kb← 250.5 kb more to contig endcalled locusPAP1: variable flank, 250,872–252,536 (-), identity 74.9%, search hit onlyPAP1OBP1: variable flank, 252,813–254,141 (+), identity 68.7%, search hit onlyOBP1PIK1: variable flank, 254,246–257,131 (+), identity 63.5%, search hit onlyPIK1MTLA2: core MAT gene, 257,440–257,693 (+), identity 37.14%, the two modelling tools disagreeMTLA2
Gene order on CH408158. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on CH408158, 250,519 to 258,289PGUG_03401 249,103-250,836 (+): hypothetical proteinPGUG_03401PGUG_03402 250,872-252,536 (-): hypothetical proteinPGUG_03402PGUG_03403 252,813-254,141 (+): hypothetical proteinPGUG_03403PGUG_03404 254,246-257,131 (+): hypothetical proteinPGUG_03404
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
  • variable flank
  • tools disagree
  • alternate model
  • search hit only
Location
CH408158:250,872–257,936 · 7.1 kb
Cross-lineage class
MAT1-2
Own genes
CH408158:250,872–257,693 · 6.8 kb · the span runs 243 bp beyond these genes
Supported span
CH408158:250,872–257,930 · 7.1 kb · 6 bp of the reported span rests only on hits below 33 bits
Locus
Provisional: the call only tied the admission bar, or came from the relaxed pass.
Genes modelled
4 of 4 gene hits
Nearest contig end
250.9 kb
Region (samtools)
CH408158:250872-257936
Idiomorph scores
  • A 37.0

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
PAP1variable flankhit onlyDIAMOND, proteome74.9cov 99.5%6.1e-305828 bits250,872–252,536 -–36911_cl143_MTL_APGUG_03402
OBP1variable flankhit onlyDIAMOND, proteome68.7cov 99.5%1.0e-220605 bits252,813–254,141 +–717740_makgeolli_MTL_APGUG_03403
PIK1variable flankhit onlyDIAMOND, proteome63.5cov 96.0%< 1e-180987 bits254,246–257,131 +–717740_makgeolli_MTL_APGUG_03404
MTLA2core MATmodels differexonerateminiprot: 257,254–257,933, 26.3%37.1cov 27.9%2.1e-0837 bits257,440–257,693 +24959_cbs767_MTL_Anone
MTLA1expected, not found–

Withheld candidate loci 52

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: fewer than 2 genes could be modelled (48); too few of the family's genes found (4).

Show the 52 withheld loci

Withheld loci (52)

familylocationidiomorph genesmodelledreason
MTLCH408155:107,462–107,638AMTLA20fewer than 2 genes could be modelled
MTLCH408155:266,490–266,663AMTLA10fewer than 2 genes could be modelled
MTLCH408155:373,074–373,211AMTLA10fewer than 2 genes could be modelled
MTLCH408155:547,152–547,301AMTLA20fewer than 2 genes could be modelled
MTLCH408155:644,535–644,741alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408155:691,485–691,685AMTLA10fewer than 2 genes could be modelled
MTLCH408155:733,101–733,241alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408155:836,979–837,143AMTLA20fewer than 2 genes could be modelled
MTLCH408155:1,136,233–1,136,517AMTLA20fewer than 2 genes could be modelled
MTLCH408155:1,270,460–1,270,660AMTLA20fewer than 2 genes could be modelled
MTLCH408155:1,331,491–1,331,658AMTLA20fewer than 2 genes could be modelled
MTLCH408158:163,118–163,345alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408158:496,690–496,860alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408158:583,051–583,173AMTLA20fewer than 2 genes could be modelled
MTLCH408158:795,505–795,675AMTLA20fewer than 2 genes could be modelled
MTLCH408158:832,859–833,044AMTLA20fewer than 2 genes could be modelled
MTLCH408158:871,224–871,565AMTLA10fewer than 2 genes could be modelled
MTLCH408158:1,095,047–1,095,199AMTLA20fewer than 2 genes could be modelled
MTLCH408159:72,118–72,279AMTLA20fewer than 2 genes could be modelled
MTLCH408159:122,221–122,400AMTLA10fewer than 2 genes could be modelled
MTLCH408159:174,822–175,061alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408159:252,081–252,401alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408159:686,373–686,462AMTLA20fewer than 2 genes could be modelled
MTLCH408159:1,045,004–1,045,177alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408159:1,155,374–1,155,484alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408157:206,193–206,297AMTLA10fewer than 2 genes could be modelled
MTLCH408157:312,171–332,497AMTLA1, MTLalpha10fewer than 2 genes could be modelled
MTLCH408157:406,877–406,975AMTLA10fewer than 2 genes could be modelled
MTLCH408157:448,177–448,305alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408157:1,108,151–1,108,303AMTLA20fewer than 2 genes could be modelled
MTLCH408157:1,172,331–1,172,450AMTLA10fewer than 2 genes could be modelled
MTLCH408157:1,351,544–1,359,691AMTLA1, MTLA20fewer than 2 genes could be modelled
MTLCH408157:1,644,916–1,645,041alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408160:152,367–152,459alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408160:299,332–299,475alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408160:334,485–334,631AMTLA20fewer than 2 genes could be modelled
MTLCH408160:424,981–425,148alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408160:618,069–618,185AMTLA20fewer than 2 genes could be modelled
MTLCH408160:841,395–841,532alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408160:893,428–893,571AMTLA20fewer than 2 genes could be modelled
MTLCH408156:399,570–399,668AMTLA10fewer than 2 genes could be modelled
MTLCH408156:639,548–639,724AMTLA10fewer than 2 genes could be modelled
MTLCH408156:756,865–777,653alphaMTLA2, MTLalpha10fewer than 2 genes could be modelled
MTLCH408156:957,602–957,724AMTLA20fewer than 2 genes could be modelled
MTLCH408156:1,272,652–1,272,750AMTLA20fewer than 2 genes could be modelled
MTLCH408156:1,365,644–1,365,733alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408156:1,675,315–1,675,410alphaMTLalpha10fewer than 2 genes could be modelled
MTLCH408162:154,436–154,717AMTLA10fewer than 2 genes could be modelled
MTLCH408155:1,725,313–1,726,575undeterminedOBP11too few of the family's genes found
MTLCH408158:384,891–390,632undeterminedPIK11too few of the family's genes found
MTLCH408159:762,661–765,537undeterminedPIK11too few of the family's genes found
MTLCH408159:1,125,883–1,128,420undeterminedOBP11too few of the family's genes found

Provenance

Genome file
MguilliermondiiATCC6260.genome.fasta
Assembly
9 contigs · 10.6 Mb · N50 1.7 Mb
Genome SHA-256
1e163dd07d2b441364b91484ed2254370b4b82ede2ac006034fc3c1b27646b3e
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': 'low_confidence', 'usable': True, 'reason': None, 'phylum': 'Ascomycota', 'phylum_taxid': 4890, 'deepest_rank': 'family', 'routing_taxid': 766764, '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': 12, 'genetic_code_from': 'family taxid 766764', 'routed_by': 'family taxid 766764 (lineage)'}, genetic_code=12, 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
2026-11-07T01:50:41Z
Run time
22 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