Assembly
ASM964855v1
BioProject PRJNA579407 · BioSample SAMN13111359
GENOME-RESOLVED EVIDENCE
GCA_009648555.1
Limosilactobacillus gastricus · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 1905155 bp · GC 41.500%
Completeness —% · contamination —%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 0/3 | 0.000 | Partial/absent |
| ethanol_entry_support | 0/1 | 0.000 | Partial/absent |
| fatty_acid_biosynthesis_core | 6/8 | 0.750 | Partial/absent |
| lactate_entry_support | 0/2 | 0.000 | Partial/absent |
| reverse_beta_oxidation_core | 2/4 | 0.500 | Partial/absent |
| rnf_complex | 0/6 | 0.000 | Partial/absent |
Detected markers
| Marker | Function | Copies |
|---|
Profile-HMM marker predictions
Approved candidates and review records are genomic predictions, not evidence of expression or MCFA production. Excluded matches remain visible for audit.
| Marker / protein | Confidence | Review status | Score / coverage | Supporting evidence |
|---|---|---|---|---|
| accAWP_082601306.1 · acetyl-CoA carboxylase carboxyltransferase subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 305.600 / 0.95200 | Bridge orthogroup OG0001120 |
| accBWP_056936567.1 · acetyl-CoA carboxylase biotin carboxyl carrier protein | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 143.400 / 0.98800 | Annotation: gene_symbol |
| accBWP_056938012.1 · acetyl-CoA carboxylase | Medium | Approved candidateverified from NCBI entries and literature | 104.500 / 0.98100 | Profile only |
| accCWP_056936568.1 · acetyl-CoA carboxylase biotin carboxylase subunit | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 651.400 / 0.99300 | Annotation: gene_symbol |
| accDWP_056936569.1 · acetyl-CoA carboxylase, carboxyltransferase subunit beta | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 372.000 / 0.93900 | Bridge orthogroup OG0000844 |
| fabFWP_056936566.1 · beta-ketoacyl-ACP synthase II | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 527.700 / 0.98800 | Annotation: gene_symbol |
| fabGWP_056936565.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 229.100 / 0.99200 | Bridge orthogroup OG0000008 |
| fabIWP_056936571.1 · enoyl-ACP reductase FabI | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 340.100 / 0.96900 | Annotation: gene_symbol |
| fabZWP_007121895.1 · 3-hydroxyacyl-ACP dehydratase FabZ | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 163.100 / 0.74900 | Bridge orthogroup OG0000074 |
| fabZWP_040467929.1 · 3-hydroxyacyl-ACP dehydratase FabZ | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 125.200 / 0.77000 | Bridge orthogroup OG0000074 |
| hbdWP_056936615.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 256.900 / 0.98900 | Bridge orthogroup OG0000153 |
| thlWP_240142982.1 · acetyl-CoA C-acetyltransferase | High | Approved candidatestrong profile and bridge orthogroup support | 497.800 / 0.95400 | Bridge orthogroup OG0000010 |
| fabGWP_056936571.1 · enoyl-ACP reductase FabI | Low | Excluded: low confidenceprofile hit lacks strong score and bridge orthogroup support | 73.800 / 0.98000 | Profile only |
| accCWP_056938011.1 · acetyl-CoA carboxylase biotin carboxylase subunit | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 528.000 / 0.98700 | Profile only |
| accCWP_056937536.1 · pyruvate carboxylase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 523.200 / 0.98900 | Profile only |
| fabGWP_153672868.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 204.400 / 0.98000 | Profile only |
| fabGWP_007121960.1 · (S)-acetoin forming diacetyl reductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 197.100 / 0.97200 | Bridge orthogroup OG0000008 |
| fabGWP_056936607.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 186.600 / 0.98400 | Profile only |
| fabGWP_235806089.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 182.100 / 0.96800 | Profile only |
| fabGWP_056937898.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 182.000 / 0.97600 | Profile only |
| fabGWP_056937034.1 · SDR family NAD(P)-dependent oxidoreductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 171.300 / 0.88700 | Bridge orthogroup OG0000242 |
| fabGWP_056937468.1 · SDR family NAD(P)-dependent oxidoreductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 169.000 / 0.96800 | Bridge orthogroup OG0000008 |
| fabGWP_056937531.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 150.200 / 0.97600 | Profile only |
| fabGWP_056938020.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 118.400 / 0.74200 | Profile only |
| fabHWP_056936562.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 274.600 / 0.99100 | Profile only |
| fabLWP_007121960.1 · (S)-acetoin forming diacetyl reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 199.300 / 0.99200 | Profile only |
| fabLWP_056936565.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 191.000 / 0.97600 | Profile only |
| fabLWP_056936607.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 184.700 / 0.98000 | Profile only |
| fabLWP_153672868.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 180.200 / 0.99200 | Profile only |
| fabLWP_235806089.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 167.000 / 0.95600 | Profile only |
| fabLWP_056937898.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 163.100 / 0.98800 | Profile only |
| fabLWP_056937468.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 147.700 / 0.99200 | Profile only |
| fabLWP_056937034.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 134.300 / 0.88500 | Profile only |
| fabLWP_056937531.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 128.700 / 0.91700 | Profile only |
| ldhWP_056936790.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 369.700 / 0.98100 | Profile only |
| ldhWP_007122140.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 363.300 / 0.98700 | Profile only |
| ldhWP_056937748.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 321.700 / 0.98400 | Profile only |
| ldhWP_056937819.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 229.200 / 0.97200 | Profile only |
| ldhWP_056937562.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 225.400 / 0.96500 | Profile only |
Protein-level evidence
| Gene | Protein | Orthogroup | Coordinates | Annotation |
|---|
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.