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Overview
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Quality Control
| Organism Summary | |
|---|---|
| Catalog Number | ATCC® 49037™ |
| Strain Alias | PA1 5 [LMG 7603, CCUG 37298, CIP 103539, DSM 5601, NCCB 89154] |
| Isolation | Sugarcane roots |
| Tags | Type Strain |
| Biosafety Level | 1 |
| Type Strain | Yes |
| Assembly Summary | |
|---|---|
| Date Published | February 26, 2020 |
| Length | 3,944,166 nt |
| Sequencing Technology | Illumina + Oxford Nanopore Hybrid Assembly |
| Number of Contigs | 13 (3 Circularized) |
| N50 | 2,164,482 nt |
| %GC | 66.32% |
| Annotations Summary | |
|---|---|
| Number of CDS | 3697 |
| Number of Hypothetical Proteins | 509 |
| Number of tRNA | 56 |
| Number of 5s rRNA | 4 |
| Number of 16s rRNA | 4 |
| Number of 23s rRNA | 4 |
| Input Reads Summary | |
|---|---|
| Oxford Nanopore Read Count | 72,883 |
| Oxford Nanopore Median Q Score | 16 |
| Illumina Read Count | 4,025,859 |
| Illumina Mean Coverage Depth | 183.029× |
| Illumina Median Q Score | 38 |
| Contig | Start | End | Name | Protein Product | EC Number | Type | RefSeq ID | Jump |
|---|
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| Taxonomic Name | ATCC Product Page | Strain Alias | Tags | Date Published | Length | Download |
|---|
Displaying Genome
| Sequencing Quality Control | |
|---|---|
| Number of trimmed reads | 4,025,859 |
| Median Q score, all bases | 38 |
| Percent of median Q scores per cycle greater than 25 | 1% |
| Ambiguous content (% N bases) | 0% |
| Assembly Quality Control | |
|---|---|
| Estimated genome completeness | 100% |
| Estimated genome contamination | 1.49% |
| Illumina depth of coverage | 183.029× |
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