Table 1. Sequencing data and summary statistics of read mapping and variant calls.
The third column indicates the classification status of the isolates suggested by Gelanew et al. 2014, rather than our conclusions based on the whole-genome data presented here. *DM19 is heterozygous at only a subset of microsatellite and MLST markers, and was described as most likely to be the result of an independent hybridization event.
| isolate | WHO name | Previous classification (Gelanew et al, 2014) | Sequence reads (total Mb) | Median mapped coverage | Proportion of genome with > = 30x coverage | # of variable sites against LV9 | Hetero- zygosity |
|---|---|---|---|---|---|---|---|
| DM19 | MHOM/ET/2007/DM19 | Possible hybrid* | 21383530 (2138.3) |
53 | 0.97 | 80930 | 0.301 |
| DM20 | MHOM/ET/2007/DM20 | parental type A | 19098154 (1909.8) |
49 | 0.96 | 74749 | 0.024 |
| DM62 | MHOM/ET/2007/DM62 | hybrid | 19577434 (1957.7) |
45 | 0.94 | 89636 | 0.468 |
| DM256 | MHOM/ET/2008/DM256 | parental type B | 19854188 (1985.4) |
51 | 0.96 | 63042 | 0.015 |
| DM257 | MHOM/ET/2008/DM257 | parental type B | 23066268 (2306.6) |
59 | 0.97 | 63088 | 0.016 |
| DM259 | MHOM/ET/2008/DM259 | parental type B | 16023002 (1602.3) |
42 | 0.91 | 63209 | 0.028 |
| DM295 | MHOM/ET/2008/DM295 | hybrid | 20010052 (2001.0) |
51 | 0.96 | 87546 | 0.388 |
| DM297 | MHOM/ET/2008/DM297 | parental type A | 20651456 (2065.1) |
52 | 0.96 | 76530 | 0.072 |
| DM299 | MHOM/ET/2008/DM299 | hybrid | 22442162 (2244.2) |
53 | 0.97 | 88605 | 0.462 |
| DM481 | MHOM/ET/2009/DM481 | parental type B |
20625354 (2062.5) |
53 | 0.97 | 82728 | 0.267 |
| DM559 | MHOM/ET/2009/DM559 | parental type B | 18753496 (1875.3) | 51 | 0.96 | 63469 | 0.030 |