Assembly
52121_G02
BioProject PRJEB6403 · BioSample SAMEA4530647
GENOME-RESOLVED EVIDENCE
GCA_900187165.1
Clostridium cochlearium · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 2435419 bp · GC 28.500%
Completeness 96.890% · contamination 0.780%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 2/3 | 0.667 | Partial/absent |
| ethanol_entry_support | 0/1 | 0.000 | Partial/absent |
| fatty_acid_biosynthesis_core | 1/8 | 0.125 | Partial/absent |
| lactate_entry_support | 1/2 | 0.500 | Partial/absent |
| reverse_beta_oxidation_core | 3/4 | 0.750 | Partial/absent |
| rnf_complex | 0/6 | 0.000 | Partial/absent |
Detected markers
| Marker | Function | Copies |
|---|---|---|
| etfB | electron transfer flavoprotein beta subunit | 1 |
| accD | acetyl-CoA carboxylase carboxyltransferase beta | 1 |
| ldh | L-lactate dehydrogenase | 2 |
| bcd | butyryl-CoA dehydrogenase | 3 |
| hbd | 3-hydroxybutyryl-CoA dehydrogenase | 1 |
| thl | acetyl-CoA acetyltransferase/thiolase | 1 |
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 |
|---|---|---|---|---|
| No profile-HMM predictions for this assembly. | ||||
Protein-level evidence
| Gene | Protein | Orthogroup | Coordinates | Annotation |
|---|---|---|---|---|
| bcdSAMEA4530647_01847 | SNV85350.1 | OG0000034 | LT906477.1:1810180–1811319 + | (3-hydroxy)butyryl-CoA dehydrogenase [Clostridium cochlearium] |
| bcdSAMEA4530647_01850 | SNV85376.1 | OG0000034 | LT906477.1:1813234–1814376 - | butyryl-CoA dehydrogenase [Clostridium cochlearium] |
| fixASAMEA4530647_02129 | SNV87928.1 | OG0000098 | LT906477.1:2097775–2098554 - | electron transfer flavoprotein beta subunit fixA [Clostridium cochlearium] |
| ldhSAMEA4530647_01755 | SNV84475.1 | OG0000131 | LT906477.1:1727991–1728941 - | L-lactate dehydrogenase [Clostridium cochlearium] |
| fadB2SAMEA4530647_02127 | SNV87911.1 | OG0000229 | LT906477.1:2095834–2096682 - | 3-hydroxybutyryl-CoA dehydrogenase [Clostridium cochlearium] |
| thlASAMEA4530647_00169 | SNV64781.1 | OG0000234 | LT906477.1:164774–165949 + | acetyl-CoA acetyltransferase [Clostridium cochlearium] |
| accDSAMEA4530647_02430 | SNV90155.1 | OG0000403 | LT906477.1:2389116–2390843 - | acetyl-CoA carboxylase carboxyl transferase subunit beta/alpha [Clostridium cochlearium] |
| bcdSAMEA4530647_02130 | SNV87934.1 | OG0001311 | LT906477.1:2098572–2099711 - | acyl-CoA/butyryl-CoA dehydrogenase [Clostridium cochlearium] |
| ldhSAMEA4530647_01150 | SNV76349.1 | OG0003138 | LT906477.1:1142180–1142596 - | L-lactate dehydrogenase (FMN-dependent) and related alpha-hydroxy acid dehydrogenases [Clostridium cochlearium] |
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.