Table 1 S . Typhimurium isolates sequenced for this study
Isolate | Year | Source (Outbreak) | Mean depth | Reads mapped | Reads accession | Contigs (Total bp) | Assembly accession |
|---|---|---|---|---|---|---|---|
STm1 | 2006 | Farm A (investigation) | 999x | 99% | SRR925393 | 119 (4,944,286) | AMDX02 |
STm2 | 2005 | Farm A (investigation) | 366x | 99% | SRR926593 | 227 (5,019,159) | AMDY01 |
STm3 | 2005 | Food (OB2) | 395x | 99% | SRR926594 | 106 (4,945,185) | AMEB02 |
STm4 | 2007 | Human case (sporadic) | 335x | 99% | SRR926595 | 150 (4,968,080) | AMEC02 |
STm5 | 2005 | Human case (OB2) | 1118x | 99% | SRR926602 | 458 (4,943,760) | AMEH02 |
STm6 | 2008 | Food (restaurant A, OB7) | 302x | 99% | SRR926596 | 84 (4,938,199) | AMED02 |
STm7 | 2008 | Human case (restaurant A, OB7) | 267x | 99% | SRR925415 | 117 (5,090,822) | ATWR01 |
STm8 | 2005 | Human case (OB1) | 311x | 99% | SRR926597 | 102 (4,937,750) | AMDZ02 |
STm9 | 2007 | Human case (OB6) | 350x | 99% | SRR926598 | 90 (4,932,393) | AMEA02 |
STm10 | 2005 | Human case (sporadic) | 523x | 99% | SRR926599 | 104 (4,946,110) | AMEE02 |
STm11 | 2005 | Human case (OB5) | 368x | 99% | SRR926600 | 118 (4,948,677) | AMEF02 |
STm12 | 2008 | Human case (restaurant A, OB7) | 354x | 99% | SRR926601 | 262 (4,990,531) | AMEG02 |