MATPredict · mating-type report

CalbicansWO1

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 02:18 UTC by MATPredict 0.8.1

Result

Mating type

alphahigh confidence

Called loci 1

alpha MTL family · Ascomycota

high confidence
Gene order of the alpha locus on Supercontig_1.6_C_albicans_WO-1alpha locus: genes from left to right on Supercontig_1.6_C_albicans_WO-1, 385,141 to 393,321: PAP1 (variable flank, plus strand); MTLalpha1 (core MAT gene, minus strand); PIK1 (variable flank, minus strand); OBP1 (variable flank, minus strand); MTLalpha2 (core MAT gene, plus strand).386 kb388 kb390 kb392 kb← 384.7 kb more to contig endcalled locusPAP1: variable flank, 385,141–386,817 (+), identity 99.8%, search hit onlyPAP1MTLalpha1: core MAT gene, 386,852–387,433 (-), identity 100.0%, search hit onlyMTLalpha1PIK1: variable flank, 387,645–390,578 (-), identity 99.9%, search hit onlyPIK1OBP1: variable flank, 390,822–392,111 (-), identity 99.5%, search hit onlyOBP1MTLalpha2: core MAT gene, 392,818–393,321 (+), identity 100.0%, search hit onlyMTLalpha2
Gene order on Supercontig_1.6_C_albicans_WO-1. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on Supercontig_1.6_C_albicans_WO-1, 384,732 to 393,730CAWG_04559 385,141-386,817 (+): Ortholog(s) have polynucleotide adenylyltransferase, RNA binding activity and role in mRNA polyadenylation, single-species biofilm formation on inanimate substrateCAWG_04559CAWG_04560 386,852-387,433 (-): Has domain(s) with predicted mating pheromone, DNA binding activity, role in positive regulation of mating-type specific transcription, DNA-dependent and nucleus localizationCAWG_04560CAWG_04561 387,645-390,578 (-): Ortholog(s) have role in single-species biofilm formation on inanimate substrateCAWG_04561CAWG_04562 390,822-392,111 (-): Ortholog(s) have role in pathogenesis, single-species biofilm formation on inanimate substrateCAWG_04562CAWG_04563 392,818-393,321 (+): Has domain(s) with predicted sequence-specific DNA binding transcription factor, sequence-specific DNA binding activity and role in regulation of transcription, DNA-dependentCAWG_04563CAWG_04564 393,686-394,090 (-): Protein of unknown functionCAWG_04564
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
  • search hit only
Location
Supercontig_1.6_C_albicans_WO-1:385,141–393,321 · 8.2 kb
Cross-lineage class
MAT1-1
Own genes
Supercontig_1.6_C_albicans_WO-1:385,141–393,321 · 8.2 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
5 of 5 gene hits
Nearest contig end
385.1 kb
Region (samtools)
Supercontig_1.6_C_albicans_WO-1:385141-393321
Idiomorph scores
  • alpha 387.0

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, proteome99.8cov 100.0%< 1e-1801,097 bits385,141–386,817 +–5476_sc5314_MTL_alphaCAWG_04559
MTLalpha1core MAThit onlyDIAMOND, proteome100.0cov 100.0%1.5e-142387 bits386,852–387,433 -–5476_sc5314_MTL_alphaCAWG_04560
PIK1variable flankhit onlyDIAMOND, proteome99.9cov 100.0%< 1e-1801,865 bits387,645–390,578 -–5476_sc5314_MTL_alphaCAWG_04561
OBP1variable flankhit onlyDIAMOND, proteome99.5cov 100.0%4.9e-321858 bits390,822–392,111 -–5476_sc5314_MTL_alphaCAWG_04562
MTLalpha2core MAThit onlyDIAMOND, proteome100.0cov 87.1%8.9e-113310 bits392,818–393,321 +–5476_sc5314_MTL_alphaCAWG_04563

Withheld candidate loci 34

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 (31); too few of the family's genes found (3).

Show the 34 withheld loci

Withheld loci (34)

familylocationidiomorph genesmodelledreason
MTLSupercontig_1.1_C_albicans_WO-1:446,715–447,083AMTLA10fewer than 2 genes could be modelled
MTLSupercontig_1.1_C_albicans_WO-1:546,675–546,860AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.1_C_albicans_WO-1:642,758–642,892alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.1_C_albicans_WO-1:719,562–736,380AMTLA1, MTLA2, MTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.1_C_albicans_WO-1:2,436,925–2,437,083AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.1_C_albicans_WO-1:2,529,533–2,529,673AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.2_C_albicans_WO-1:280,198–280,287AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.2_C_albicans_WO-1:754,087–768,714AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.2_C_albicans_WO-1:818,079–818,198AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.2_C_albicans_WO-1:911,726–911,881AMTLA10fewer than 2 genes could be modelled
MTLSupercontig_1.2_C_albicans_WO-1:1,206,388–1,206,531AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.2_C_albicans_WO-1:1,870,142–1,870,300alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.2_C_albicans_WO-1:2,096,850–2,096,966AMTLA10fewer than 2 genes could be modelled
MTLSupercontig_1.2_C_albicans_WO-1:2,296,359–2,296,565alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.6_C_albicans_WO-1:249,444–249,539alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.6_C_albicans_WO-1:978,378–978,476AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.6_C_albicans_WO-1:1,129,671–1,129,841AMTLA10fewer than 2 genes could be modelled
MTLSupercontig_1.7_C_albicans_WO-1:299,769–299,876alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.7_C_albicans_WO-1:907,654–907,941alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.3_C_albicans_WO-1:101,476–101,616alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.3_C_albicans_WO-1:536,271–536,387alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.3_C_albicans_WO-1:689,407–689,502alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.5_C_albicans_WO-1:710,602–710,751AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.5_C_albicans_WO-1:1,316,047–1,316,163alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.8_C_albicans_WO-1:215,004–215,210AMTLA10fewer than 2 genes could be modelled
MTLSupercontig_1.8_C_albicans_WO-1:957,361–957,567alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.4_C_albicans_WO-1:95–301alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.4_C_albicans_WO-1:208,691–208,834AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.4_C_albicans_WO-1:652,812–652,994AMTLA10fewer than 2 genes could be modelled
MTLSupercontig_1.4_C_albicans_WO-1:848,939–849,091AMTLA20fewer than 2 genes could be modelled
MTLSupercontig_1.4_C_albicans_WO-1:1,512,191–1,512,289alphaMTLalpha10fewer than 2 genes could be modelled
MTLSupercontig_1.1_C_albicans_WO-1:1,763,610–1,766,672undeterminedPIK11too few of the family's genes found
MTLSupercontig_1.2_C_albicans_WO-1:1,008,236–1,009,894undeterminedOBP11too few of the family's genes found
MTLSupercontig_1.2_C_albicans_WO-1:1,537,134–1,542,914undeterminedPIK11too few of the family's genes found

Provenance

Genome file
CalbicansWO1.genome.fasta
Assembly
16 contigs · 14.4 Mb · N50 1.8 Mb
Genome SHA-256
8a6ac2c30917063e60416703386bab5ad27d7df1a5264b84a83ea98887e2e17f
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': 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
2026-11-07T02:18:14Z
Run time
39 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