Cfabianii65 – MATPredict report

Result

No MAT locus called

No family reached the evidence bar. That is weak evidence that the locus is absent: a fragmented assembly, or a lineage far from every reference, often explains it.

Next: check the withheld candidate loci below against a known locus, or type the strain from its reads.

What was searched

Routing: Whole phylum. No curated family covers this lineage, so every family of the genome's phylum was searched. Family labels are less reliable here.
Families searched: Ascomycota:MATsc, Ascomycota:MTL
Genetic code: 1
Taxonomy: local NCBI taxonomy snapshot 2026-10-01

Families searched but not called

family	reason	best % of genes found	genes found
Ascomycota:MATsc	best cluster carried 1 modelled gene(s), below the 2 required to report a locus; only 1 of its genes could be modelled	100.0	MATALPHA1, MATALPHA2, MATA1, sla2
Ascomycota:MTL	best cluster carried 1 modelled gene(s), below the 2 required to report a locus; only 1 of its genes could be modelled	100.0	MTLA1, PAP1

Withheld candidate loci 96

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 (92); too few of the family's genes found (4).

Show the 96 withheld loci

Withheld loci (96)

family	location	idiomorph	genes	modelled	reason
MTL	MPUK01000002:504,685–504,822	A	MTLA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000002:629,367–629,471	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MTL	MPUK01000002:668,375–668,563	A	MTLA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000002:1,016,577–1,025,396	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000002:1,415,925–1,416,182	MATa	MATA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000002:1,513,583–1,513,807	A	MTLA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000005:121,009–121,167	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MTL	MPUK01000005:503,830–504,024	A	MTLA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000005:615,961–651,569	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000005:615,961–651,569	MATalpha	MATALPHA1, MATALPHA2, MATA1, sla2	1	fewer than 2 genes could be modelled
MATsc	MPUK01000010:21,642–21,806	MATa	MATA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000010:193,490–193,591	MATa	MATA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000010:258,494–258,751	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000010:258,494–258,751	A	MTLA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000010:403,135–403,284	A	MTLA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000011:96,571–120,657	MATa	MATA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000011:96,571–120,657	A	MTLA1, PAP1	1	fewer than 2 genes could be modelled
MATsc	MPUK01000011:278,273–278,377	undetermined	MATALPHA2, MATA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000014:218,577–218,681	A	MTLA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000001:47,527–47,619	MATalpha	MATALPHA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000001:177,679–177,777	undetermined	MATALPHA2, MATA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000001:210,456–210,683	MATa	MATA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000001:248,983–249,234	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000001:248,983–249,234	A	MTLA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000001:311,905–312,108	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000001:469,424–469,684	A	MTLA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000001:807,941–808,129	MATa	MATA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000001:937,312–937,563	MATa	MATA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000001:967,034–967,222	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MTL	MPUK01000001:1,004,162–1,004,260	A	MTLA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000001:1,058,255–1,058,374	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MTL	MPUK01000001:1,142,103–1,142,222	A	MTLA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000001:1,571,291–1,571,575	MATalpha	MATALPHA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000001:1,613,507–1,613,635	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000001:1,751,114–1,762,854	MATalpha	MATALPHA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000001:1,751,114–1,762,854	A	MTLA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000001:1,956,150–1,956,278	A	MTLA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000001:2,013,637–2,013,750	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000015:133,244–133,384	MATalpha	MATALPHA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000017:21,626–68,973	MATalpha	MATALPHA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000004:66,439–66,543	A	MTLA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000004:296,645–296,776	MATalpha	MATALPHA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000004:330,702–330,836	A	MTLA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000004:364,892–364,999	A	MTLA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000004:456,405–456,518	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000004:499,648–499,821	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000004:532,311–532,424	MATa	MATA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000004:692,241–723,782	A	MTLA1, MTLA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000004:692,241–723,782	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000004:1,079,887–1,080,006	MATa	MATA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000007:104,790–104,963	A	MTLA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000007:221,978–222,106	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MTL	MPUK01000007:293,012–293,146	A	MTLA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000007:379,494–379,619	undetermined	MATA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000007:467,011–467,211	A	MTLA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000007:535,347–535,475	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000007:562,457–562,729	MATalpha	MATALPHA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000003:72,133–72,264	A	MTLA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000003:321,278–321,520	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000003:321,278–321,520	undetermined	MATA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000003:390,281–390,478	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MTL	MPUK01000003:617,398–629,599	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000003:617,398–629,599	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000003:851,937–852,053	A	MTLA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000003:959,188–959,310	A	MTLA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000003:1,018,335–1,018,475	MATalpha	MATALPHA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000003:1,075,977–1,076,123	A	MTLA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000003:1,115,275–1,137,515	A	MTLA1, MTLA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000003:1,115,275–1,137,515	MATa	MATA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000003:1,164,095–1,164,304	MATa	MATA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000003:1,164,095–1,164,304	A	MTLA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000020:53,831–60,249	MATa	MATA1, MATA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000006:87,060–87,269	MATa	MATA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000006:193,789–194,061	undetermined	MATA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000006:373,898–373,987	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MTL	MPUK01000006:467,361–467,453	A	MTLA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000006:566,259–568,543	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000009:66,939–67,100	A	MTLA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000009:436,697–436,792	undetermined	MATA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000008:60,612–60,710	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MTL	MPUK01000008:105,825–105,971	A	MTLA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000008:137,057–137,254	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000008:442,311–442,472	undetermined	MATALPHA2	0	fewer than 2 genes could be modelled
MTL	MPUK01000008:567,392–567,493	A	MTLA2	0	fewer than 2 genes could be modelled
MATsc	MPUK01000012:168,299–168,409	MATa	MATA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000012:284,148–284,309	A	MTLA1	0	fewer than 2 genes could be modelled
MATsc	MPUK01000016:35,418–35,606	MATalpha	MATALPHA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000013:59,254–59,388	A	MTLA1	0	fewer than 2 genes could be modelled
MTL	MPUK01000013:226,546–226,656	alpha	MTLalpha1	0	fewer than 2 genes could be modelled
MTL	MPUK01000002:737,767–762,483	alpha	MTLalpha2, PIK1	1	fewer than 2 genes could be modelled
MTL	MPUK01000010:292,301–298,910	alpha	MTLA2, MTLalpha2, PIK1	1	fewer than 2 genes could be modelled
MTL	MPUK01000017:21,626–68,973	A	MTLA2, MTLalpha2	0	fewer than 2 genes could be modelled
MTL	MPUK01000002:737,767–762,483	alpha	MTLalpha2, PIK1	1	too few of the family's genes found
MTL	MPUK01000002:1,447,943–1,456,012	undetermined	PIK1	1	too few of the family's genes found
MTL	MPUK01000010:292,301–298,910	alpha	MTLA2, MTLalpha2, PIK1	1	too few of the family's genes found
MTL	MPUK01000014:139,611–140,927	undetermined	OBP1	1	too few of the family's genes found

Provenance

Genome file: Cfabianii65.genome.fasta
Assembly: 25 contigs · 12.2 Mb · N50 1.2 Mb
Genome SHA-256: 3e153c743657734ef0b5396723c5d244a0518bebf3efc044f64b3f4af0271ebb
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': 599729, 'routing_taxid_rank': 'family', 'flags': ['mixture_suspected'], '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 599729', 'routed_by': 'family taxid 599729 (phylum_fallback)'}, 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: 2026-11-07T02:18:23Z
Run time: 23 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.

Limits

MATPredict reads an assembly; it is not a mating assay. Two idiomorphs in one assembly can come from a homothallic species, a mixed culture or a merged diploid assembly.
Fragmented assemblies can split a locus or lose its flanking genes; an uncalled genome is weak evidence of absence.
Lineages with no curated record are searched with the whole phylum's references; family labels there are less reliable.