Table 1 General features of the Amycolatopsis genomes
Species | Â | A. orientalis | A. mediterranei | ||||
|---|---|---|---|---|---|---|---|
Strain | Â | HCCB10007 | U32 | S699 | |||
Length (bp) | Â | 8,948,591 | 10,236,715 | 10,246,920 | |||
Core/quasi-core vs Noncore (Mbp) | Â | 5.9 | 3.0 | 6.1 | 4.1 | 6.1 | 4.1 |
GC content | Â | 69.0% | 71.3% | 71.3% | |||
Core/quasi-core vs Noncore | Â | 69.0% | 69.0% | 71.1% | 71.6% | 71.1% | 71.6% |
ORFs | Total | 8,121 | 9,228 | 9,227 | |||
Core/quasi-core vs Noncore | Â | 5,624 | 2,497 | 5,627 | 3,601 | 5,630 | 3,597 |
| Â | Proteins with function assigned | 5,518 (67.9%) | 6,441 (69.8%) | 6,386 (69.2%) | |||
Hypothetical proteins with unknown function | 2,603 (32.1%) | 2,787 (30.2%) | 2,841 (30.8%) | ||||
| Â | Average ORF size (bp) | 996 | 990 | 989 | |||
Core/quasi-core vs Noncore | Â | 955 | 1,089 | 966 | 1,027 | 965 | 1,027 |
| Â | Average Intergenic region size (bp) | 105 | 119 | 121 | |||
Core/quasi-core vs Noncore | Â | 101 | 116 | 115 | 126 | 118 | 126 |
| Â | Coding density (%) | 90.4% | 89.3% | 89.1% | |||
Core/quasi-core vs Noncore | Â | 90.5% | 90.3% | 89.4% | 89.1% | 89.0% | 89.1% |
RNA | rRNA operons | 4 | 4 | 4 | |||
Core/quasi-core vs Noncore | Â | 4 | 0 | 4 | 0 | 4 | 0 |
| Â | tRNA genes | 50 | 52 | 52 | |||
Core/quasi-core vs Noncore | Â | 41 | 9 | 41 | 11 | 41 | 11 |