MATPredict · mating-type report

CgattiiVGIIR265

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 01:57 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 CP025767alpha locus: genes from left to right on CP025767, 153,700 to 262,784: FAO1 (conserved flank, plus strand); SXI2 (core MAT gene, minus strand); SXI1 (core MAT gene, plus strand); STE3 (core MAT gene, plus strand); MFalpha (core MAT gene, minus strand); MFa (core MAT gene, plus strand); RPL39 (core MAT gene, minus strand); PAN6 (conserved flank, plus strand).160 kb180 kb200 kb220 kb240 kb260 kb← 148.2 kb more to contig endcalled locusFAO1: conserved flank, 153,700–155,047 (+), identity 87.4%, search hit onlyFAO1SXI2: core MAT gene, 155,546–155,727 (-), identity 63.33%, gene modelSXI2SXI1: core MAT gene, 156,583–157,936 (+), identity 73.5%, search hit onlySXI1STE3: core MAT gene, 222,873–224,188 (+), identity 90.5%, search hit onlySTE3MFalpha: core MAT gene, 228,838–228,954 (-), identity 94.7%, search hit onlyMFalphaMFa: core MAT gene, 229,713–229,814 (+), identity 57.143%, search hit onlyMFa (lost to MFalpha)RPL39: core MAT gene, 247,460–247,959 (-), identity 100.0%, search hit onlyRPL39PAN6: conserved flank, 261,090–262,784 (+), identity 89.8%, search hit onlyPAN6
Gene order on CP025767. Scroll sideways to see the whole figure.
FungiDB release 68 gene models on CP025767, 148,238 to 268,244CNBG_5884 144,959-148,420 (+): Zn2-Cys6 transcription factorCNBG_5884 HAP1CNBG_5883 148,612-151,449 (-): NCS2 family nucleobase:cation symporter-2CNBG_5883 UAP1CNBG_5882 151,974-153,364 (-): cytosine deaminaseCNBG_5882CNBG_5881 153,532-155,339 (+): putative fatty alcohol oxidase in the mating-type locusCNBG_5881 FAO1CNBG_5880 156,482-158,370 (+): Homeobox_KN domain-containing protein [Source:UniProtKB/TrEMBL;Acc:A0A095CID7]CNBG_5880 SXI1alphaCNBG_5879 158,578-159,858 (+): 50S small subunit ribosomal protein L22eCNBG_5879 RPL22alphaCNBG_5878 159,862-160,689 (-): vacuolar protein sorting-associated protein 26B-like proteinCNBG_5878CNBG_10076 160,819-161,338 (-): unspecified productCNBG_10076CNBG_5877 161,753-168,524 (+): histone demethylase JARID1CNBG_5877 RUM1alphaCNBG_5876 168,712-172,217 (+): protein of unknown function, encoded on mat locusCNBG_5876 BSP1CNBG_5875 172,230-175,772 (+): GEF1 proteinCNBG_5875CNBG_5874 176,173-183,203 (-): phospholipase DCNBG_5874 SPO14alphaCNBG_5873 183,601-186,861 (-): CAP10 domain-containing protein [Source:UniProtKB/TrEMBL;Acc:A0A095CHU8]CNBG_5873 CAP1alphaCNBG_5872 189,967-193,344 (+): Polynucleotide adenylyltransferase [Source:UniProtKB/TrEMBL;Acc:A0A095CKT3]CNBG_5872 CID1alphaCNBG_5871 193,566-195,753 (+): dihydrolipoyl dehydrogenaseCNBG_5871 LPD1alphaCNBG_5870 195,684-198,534 (-): armadillo/beta-catenin repeat protein, encoded on mat locusCNBG_5870 BSP2CNBG_5869 198,579-203,176 (+): DNA-directed RNA polymerase mitochondrialCNBG_5869 RPO41alphaCNBG_9621 203,436-207,821 (-): STE/STE11 protein kinaseCNBG_9621CNBG_5868 208,111-214,947 (+): myosin class v heavy chainCNBG_5868 MYO2alphaCNBG_5867 213,851-217,813 (-): STE/STE20/PAKA protein kinaseCNBG_5867 STE20alphaCNBG_5866 220,125-221,705 (-): electron transfer flavoprotein alpha subunitCNBG_5866 ETF1alphaCNBG_5865 222,770-224,249 (+): pheromone a factor receptorCNBG_5865 STE3alphaCNBG_5864 224,851-227,955 (+): IKS protein kinaseCNBG_5864 IKS1CNBG_10121 228,598-229,422 (-): Fungal mating-type pheromone [Source:UniProtKB/TrEMBL;Acc:A0A095ET08]CNBG_10121CNBG_10122 229,191-229,853 (+): unspecified productCNBG_10122CNBG_5863 230,812-233,635 (+): eukaryotic translation initiation factor 3 subunit BCNBG_5863CNBG_5862 233,663-237,684 (-): conserved hypothetical proteinCNBG_5862CNBG_5861 239,383-240,098 (-): fungal mating-type pheromoneCNBG_5861 MFalpha3CNBG_10123 240,169-240,775 (+): Fungal mating-type pheromone [Source:UniProtKB/TrEMBL;Acc:A0A095ET08]CNBG_10123CNBG_5860 242,574-246,873 (+): btp/pz domain proteinCNBG_5860 BSP3CNBG_5859 246,824-248,023 (-): 60S ribosomal protein L39CNBG_5859 RPL39alphaCNBG_5858 249,993-254,052 (-): ste-like transcription factorCNBG_5858 STE12alphaCNBG_5857 254,304-257,265 (+): mat3 pheromone repeat proteinCNBG_5857 MAT3CNBG_9620 257,098-257,647 (-): unspecified productCNBG_9620CNBG_5856 257,798-260,868 (+): nucleolar GTP-binding protein 2CNBG_5856 NOG2CNBG_5855 260,930-262,854 (+): pantoate-beta-alanine ligaseCNBG_5855 PAN6CNBG_5854 262,824-266,046 (-): conserved hypothetical proteinCNBG_5854CNBG_5853 266,471-267,029 (-): heat shock protein, 12KdaCNBG_5853 HSP12CNBG_5852 267,896-271,592 (-): autophagy-like protein 9CNBG_5852 APG9
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
  • conserved flank
  • gene model
  • search hit only
Location
CP025767:153,700–262,784 · 109.1 kb
Own genes
CP025767:153,700–262,784 · 109.1 kb
Locus
Complete locus: MAT gene(s) with their flanking genes.
Genes modelled
7 of 8 gene hits
Nearest contig end
153.7 kb
Region (samtools)
CP025767:153700-262784
Idiomorph scores
  • alpha 556.0
  • a 48.1

Margin over the next idiomorph: 507.9

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
MFalpha94.7MFa54.8100.0higher identity
MFalpha91.7MFa57.1100.0higher identity
MFalpha94.7MFa54.8100.0higher identity
MFalpha94.7MFa54.8100.0higher identity

Gene evidence

GeneRoleModel Identity %E-value Position (strand)Exons Reference recordFungiDB gene
FAO1conserved flankhit onlyDIAMOND, proteome87.4cov 100.0%2.5e-232625 bits153,700–155,047 +–40410_jec20_MAT_aCNBG_5881 FAO1
SXI2core MATgene modelexonerate2 frameshiftsdefective gene model63.3cov 8.6%1.0e-0548 bits155,546–155,727 -140410_jec20_MAT_anone
SXI1core MAThit onlyDIAMOND, proteome73.5cov 99.8%4.9e-203556 bits156,583–157,936 +–40410_jec21_MAT_alphaCNBG_5880 SXI1alpha
STE3core MAThit onlyDIAMOND, proteome90.5cov 100.0%2.5e-262704 bits222,873–224,188 +–40410_jec21_MAT_alphaCNBG_5865 STE3alpha
MFalphacore MAThit onlyDIAMOND, proteome94.7cov 100.0%3.1e-2372 bits228,838–228,954 -–40410_jec21_MAT_alphaCNBG_10121
MFacore MATlost to MFalpha, not countedhit onlytblastn57.1cov 83.0%1.8e-0641 bits229,713–229,814 +–40410_jec20_MAT_aCNBG_10122
RPL39core MAThit onlyDIAMOND, proteome100.0cov 100.0%2.1e-35103 bits247,460–247,959 -–40410_jec20_MAT_aCNBG_5859 RPL39alpha
PAN6conserved flankhit onlyDIAMOND, proteome89.8cov 100.0%2.1e-266716 bits261,090–262,784 +–40410_jec20_MAT_aCNBG_5855 PAN6
MFanot searchable: no reference protein in the database–
NOG2not searchable: no reference protein in the database–
UAP1not searchable: no reference protein in the database–

Provenance

Genome file
CgattiiVGIIR265.genome.fasta
Assembly
15 contigs · 17.6 Mb · N50 1.3 Mb
Genome SHA-256
28b0018aa50397526ead517d974e5f57b9d366b9c5920c54079f77563d13e6a4
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': 'genus', '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
2026-11-07T01:57:08Z
Run time
16 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