genome:
FAM19471-i1-1.1
organism:
FAM19471
old identifier:
FAM19471
species:
Limosilactobacillus fermentum
taxid:
1613
This genome is a representative of
FAM19471.
Tags
mdpi
Published as part of the MDPI paper (Roder et al., 2020)
Metadata
| Key Parameters |
|
| Representative? |
True |
| Contaminated? |
False |
| Sequencing Information |
|
| Sequencing technology |
Illumina |
| Assembly Information |
|
| GC content |
51.5 |
| Longest scaffold |
154742 |
| Assembly size |
2036472 |
| Number of scaffolds |
211 |
| N50 |
34842 |
| Number of gaps |
0 |
| Total Ns |
0 |
| Annotation Information |
|
| Primary annotation tool |
pgap |
| Date of primary annotation |
May 15, 2020 |
| Version of primary annotation |
2020-03-30.build4489 |
| Number of genes |
2214 |
| Annotations by category |
|
|
# genes with annotation |
# unique annotations |
Browse anntoations |
| EC Number (EC) |
627 |
531 |
link
|
| KEGG gene (KG) |
1301 |
1070 |
link
|
| KEGG reaction (KR) |
478 |
732 |
link
|
| Gene Ontology (GO) |
381 |
1668 |
link
|
| Ortholog (OL) |
1836 |
1535 |
link
|
| Gene Code (GC) |
601 |
402 |
link
|
| Gene Product (GP) |
2061 |
1213 |
link
|
| Eggnog Protein (EP) |
1246 |
1114 |
link
|
| Eggnog Ortholog (EO) |
1925 |
1233 |
link
|
| Eggnog Description (ED) |
1816 |
1212 |
link
|
| ABRicate hit (AR) |
0 |
0 |
link
|
BUSCO
| BUSCO |
lactobacillales_odb10 2019-04-24 |
| Single-copy |
398 |
| Duplicated |
2 |
| Fragmented |
2 |
| Missing |
0 |
| Complete |
400 |
| Total |
402 |
COG
| COG |
description |
value |
| S |
Function unknown |
417.0 |
| L |
Replication, recombination and repair |
312.7 |
| J |
Translation, ribosomal structure and biogenesis |
153.3 |
| K |
Transcription |
139.7 |
| E |
Amino acid transport and metabolism |
135.7 |
| F |
Nucleotide transport and metabolism |
111.0 |
| M |
Cell wall/membrane/envelope biogenesis |
89.0 |
| G |
Carbohydrate transport and metabolism |
86.7 |
| C |
Energy production and conversion |
82.0 |
| H |
Coenzyme transport and metabolism |
81.5 |
| P |
Inorganic ion transport and metabolism |
76.7 |
| I |
Lipid transport and metabolism |
52.0 |
| O |
Posttranslational modification, protein turnover, chaperones |
40.2 |
| U |
Intracellular trafficking, secretion, and vesicular transport |
39.8 |
| T |
Signal transduction mechanisms |
33.2 |
| D |
Cell cycle control, cell division, chromosome partitioning |
32.0 |
| V |
Defense mechanisms |
23.0 |
| Q |
Secondary metabolites biosynthesis, transport and catabolism |
13.5 |
| N |
Cell motility |
6.2 |
16S NCBI-db
| taxid |
evalue |
description |
| Lactobacillus |
0.0 |
Lactobacillus fermentum strain NBRC 15885 16S ribosomal RNA, partial sequence |
| Lactobacillus |
0.0 |
Lactobacillus fermentum strain CIP 102980 16S ribosomal RNA, partial sequence |
| Lactobacillus |
0.0 |
Lactobacillus gorillae strain KZ01 16S ribosomal RNA, partial sequence |
| Lactobacillus |
0.0 |
Lactobacillus ingluviei strain KR3 16S ribosomal RNA, partial sequence |
| Lactobacillus |
0.0 |
Lactobacillus fermentum strain NCDO 1750 16S ribosomal RNA, partial sequence |
| Lactobacillus |
0.0 |
Lactobacillus gastricus strain Kx156A7 16S ribosomal RNA, partial sequence |
| Lactobacillus |
0.0 |
Lactobacillus equigenerosi strain NRIC 0697 16S ribosomal RNA, partial sequence |
| Lactobacillus |
0.0 |
Lactobacillus mucosae strain S32 16S ribosomal RNA, partial sequence |
| Lactobacillus |
0.0 |
Lactobacillus fermentum strain CIP 102980 16S ribosomal RNA, partial sequence |
| Lactobacillus |
0.0 |
Lactobacillus fermentum strain NBRC 15885 16S ribosomal RNA, partial sequence |
16S dairydb
| taxid |
confidence |
description |
unclassified Lactobacillus (taxid 2620435) |
93.492985 |
unclassified Lactobacillus |
Download files
- Assembly
- Coding sequences (CDS)
- Custom annotations
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