MATPredict · mating-type report

CalbicansSC5314_B

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 02:32 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 Ca22chr5B_C_albicans_SC5314alpha locus: genes from left to right on Ca22chr5B_C_albicans_SC5314, 393,931 to 402,224: 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).394 kb396 kb398 kb400 kb402 kb← 393.5 kb more to contig endcalled locusPAP1: variable flank, 393,931–395,604 (+), identity 100.0%, search hit onlyPAP1MTLalpha1: core MAT gene, 395,645–396,223 (-), identity 100.0%, search hit onlyMTLalpha1PIK1: variable flank, 396,438–399,368 (-), identity 100.0%, search hit onlyPIK1OBP1: variable flank, 399,615–400,901 (-), identity 100.0%, search hit onlyOBP1MTLalpha2: core MAT gene, 401,608–402,224 (+), identity 100.0%, search hit onlyMTLalpha2
Gene order on Ca22chr5B_C_albicans_SC5314. Scroll sideways to see the whole figure.
FungiDB release 71 gene models on Ca22chr5B_C_albicans_SC5314, 393,517 to 402,638C5_01745W_B 393,931-395,607 (+): Putative poly(A) polymerase, PAP is inhibited by parnafungin antifungals, non-sex gene located within the MTLalpha mating-type-like locusC5_01745W_B PAPALPHAC5_01755C_B 395,642-396,223 (-): Master regulator (activator) of alpha mating type, gene of the MTLalpha (Mating Type Like) locus, ortholog of S. cerevisiae Alpha1p, a/alpha mating type may increase virulence, offers competitive advantageC5_01755C_B MTLALPHA1C5_01765C_B 396,435-399,368 (-): Phosphatidylinositol 4-kinase, controls levels of phosphatidylinositol-4-phosphate (PI(4)P) in the Golgi, non-sex gene located in MTLalpha mating-type-like locus, nonidentical gene encoding PI(4)P kinase, PIKA, located in MTLa locusC5_01765C_B PIKALPHAC5_01775C_B 399,612-400,901 (-): Similar to oxysterol binding protein, non-sex gene located within the MTLalpha mating-type-like locusC5_01775C_B OBPALPHAC5_01785W_B 401,608-402,227 (+): Homeodomain protein of MTLalpha (Mating Type Like) locus, alpha2p, together with a1p, repress white-opaque switching and mating (an opaque-specific process), a/alpha mating type may increase virulence, provides competitive advantageC5_01785W_B MTLALPHA2
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
  • variable flank
  • search hit only
Location
Ca22chr5B_C_albicans_SC5314:393,931–402,224 · 8.3 kb
Cross-lineage class
MAT1-1
Own genes
Ca22chr5B_C_albicans_SC5314:393,931–402,224 · 8.3 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
5 of 5 gene hits
Nearest contig end
393.9 kb
Region (samtools)
Ca22chr5B_C_albicans_SC5314:393931-402224
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, proteome100.0cov 100.0%< 1e-1801,098 bits393,931–395,604 +–5476_sc5314_MTL_alphaC5_01745W_B PAPALPHA
MTLalpha1core MAThit onlyDIAMOND, proteome100.0cov 100.0%1.5e-142387 bits395,645–396,223 -–5476_sc5314_MTL_alphaC5_01755C_B MTLALPHA1
PIK1variable flankhit onlyDIAMOND, proteome100.0cov 100.0%< 1e-1801,865 bits396,438–399,368 -–5476_sc5314_MTL_alphaC5_01765C_B PIKALPHA
OBP1variable flankhit onlyDIAMOND, proteome100.0cov 100.0%4.6e-322861 bits399,615–400,901 -–5476_sc5314_MTL_alphaC5_01775C_B OBPALPHA
MTLalpha2core MAThit onlyDIAMOND, proteome100.0cov 100.0%2.3e-129353 bits401,608–402,224 +–5476_sc5314_MTL_alphaC5_01785W_B MTLALPHA2

Withheld candidate loci 27

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

Show the 27 withheld loci

Withheld loci (27)

familylocationidiomorph genesmodelledreason
MTLCa22chr1B_C_albicans_SC5314:483,241–483,513AMTLA10fewer than 2 genes could be modelled
MTLCa22chr1B_C_albicans_SC5314:757,387–757,545AMTLA20fewer than 2 genes could be modelled
MTLCa22chr1B_C_albicans_SC5314:1,332,490–1,332,585AMTLA10fewer than 2 genes could be modelled
MTLCa22chr1B_C_albicans_SC5314:2,458,282–2,460,683alphaMTLA1, MTLalpha10fewer than 2 genes could be modelled
MTLCa22chr1B_C_albicans_SC5314:2,551,925–2,552,059alphaMTLalpha10fewer than 2 genes could be modelled
MTLCa22chr1B_C_albicans_SC5314:2,748,611–2,748,979AMTLA10fewer than 2 genes could be modelled
MTLCa22chr5B_C_albicans_SC5314:1,119,265–1,119,435AMTLA10fewer than 2 genes could be modelled
MTLCa22chrRB_C_albicans_SC5314:261,994–262,101AMTLA10fewer than 2 genes could be modelled
MTLCa22chrRB_C_albicans_SC5314:757,400–772,057AMTLA20fewer than 2 genes could be modelled
MTLCa22chrRB_C_albicans_SC5314:821,427–821,546AMTLA20fewer than 2 genes could be modelled
MTLCa22chrRB_C_albicans_SC5314:909,488–909,643AMTLA10fewer than 2 genes could be modelled
MTLCa22chrRB_C_albicans_SC5314:1,873,074–1,873,232alphaMTLalpha10fewer than 2 genes could be modelled
MTLCa22chrRB_C_albicans_SC5314:2,095,495–2,095,611AMTLA10fewer than 2 genes could be modelled
MTLCa22chr6B_C_albicans_SC5314:131,195–131,482alphaMTLalpha10fewer than 2 genes could be modelled
MTLCa22chr6B_C_albicans_SC5314:740,405–740,512alphaMTLalpha10fewer than 2 genes could be modelled
MTLCa22chr3B_C_albicans_SC5314:120,388–120,528alphaMTLalpha10fewer than 2 genes could be modelled
MTLCa22chr3B_C_albicans_SC5314:724,080–724,175alphaMTLalpha10fewer than 2 genes could be modelled
MTLCa22chr2B_C_albicans_SC5314:711,888–712,028AMTLA20fewer than 2 genes could be modelled
MTLCa22chr2B_C_albicans_SC5314:1,306,759–1,306,875alphaMTLalpha10fewer than 2 genes could be modelled
MTLCa22chr7B_C_albicans_SC5314:205,338–205,544AMTLA10fewer than 2 genes could be modelled
MTLCa22chr4B_C_albicans_SC5314:121,577–121,675alphaMTLalpha10fewer than 2 genes could be modelled
MTLCa22chr4B_C_albicans_SC5314:790,089–790,241AMTLA20fewer than 2 genes could be modelled
MTLCa22chr4B_C_albicans_SC5314:955,409–955,591AMTLA10fewer than 2 genes could be modelled
MTLCa22chr4B_C_albicans_SC5314:1,401,632–1,401,775AMTLA20fewer than 2 genes could be modelled
MTLCa22chr1B_C_albicans_SC5314:1,427,929–1,430,988undeterminedPIK11too few of the family's genes found
MTLCa22chrRB_C_albicans_SC5314:1,006,414–1,008,069undeterminedOBP11too few of the family's genes found
MTLCa22chrRB_C_albicans_SC5314:1,539,944–1,545,724undeterminedPIK11too few of the family's genes found

Provenance

Genome file
CalbicansSC5314_B.genome.fasta
Assembly
8 contigs · 14.3 Mb · N50 2.2 Mb
Genome SHA-256
c41f103afe0d0647abac07617790e7771c12437a054f79e479d63be3611701bb
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
2026-11-07T02:31:46Z
Run time
25 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