Table 1 Sequencing Summary
From: Genetic structure of community acquired methicillin-resistant Staphylococcus aureus USA300
| Â | Â | Â | All variants | Large events (>100 bp) | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Â | Â | Â | Â | Â | Â | Â | Â | Deletions | Insertions | |||
| Â | Sequenced | Â | Â | Nonubiquotus | Â | Â | Â | Â | Sequence | Mapped | Additional | Sequence |
| Â | Bases (Mb) | Coverage | SNV | SNV | Deletions | Insertions | Total | Events | Size | Events | Contigs | Size |
FPR3757 r1 | 155.74 | 56 | 19 | - | 4 | 1 | 24 | 0 | - | 0 | 0 | - |
FPR3757 r2 | 148.06 | 53 | 19 | - | 4 | 1 | 24 | 0 | - | 0 | 0 | - |
RCH_I15 | 164.67 | 59 | 59 | 35 | 5 | 2 | 66 | 0 | - | 0 | 0 | - |
RCH_I18 | 199.24 | 71 | 64 | 40 | 5 | 4 | 73 | 2 | 35.6 kb | 0 | 0 | - |
RCH_I19 | 190.7 | 68 | 66 | 42 | 5 | 1 | 72 | 0 | - | 1 | 2 | 43.9 kb |
RCH_I21 | 188.24 | 67 | 61 | 39 | 6 | 4 | 71 | 1 | 14 kb | 0 | 0 | - |
RCH_I29 | 203.32 | 73 | 60 | 36 | 6 | 3 | 69 | 1 | 101 bp | 1 | 3 | 41.1 kb |
RCH_I33 | 122.77 | 44 | 59 | 35 | 6 | 3 | 68 | 0 | - | 0 | 1 | 1.8 kb |
RCH_I34 | 168.63 | 60 | 69 | 45 | 6 | 3 | 78 | 0 | - | 0 | 0 | - |
RCH_I35 | 222.67 | 80 | 55 | 31 | 4 | 2 | 61 | 0 | - | 0 | 0 | - |
RCH_I36 | 155.12 | 55 | 79 | 55 | 11 | 5 | 95 | 0 | - | 0 | 0 | - |
RCH_I38 | 217.8 | 78 | 65 | 41 | 7 | 4 | 76 | 0 | - | 0 | 0 | - |
RCH_I42 | 125.61 | 45 | 70 | 46 | 6 | 7 | 83 | 0 | - | 0 | 0 | - |
RCH_I44 | 176.91 | 63 | 102 | 78 | 6 | 4 | 112 | 1 | 15.1 kb | 0 | 0 | - |
RCH_I48 | 245.34 | 88 | 77 | 53 | 6 | 5 | 88 | 0 | - | 0 | 0 | - |
RCH_I49 | 191.01 | 68 | 71 | 47 | 9 | 3 | 83 | 0 | - | 0 | 0 | - |
RCH_I56 | 109.38 | 39 | 173A | 149 | 9 | 4 | 186 | 0 | - | 1 | 7 | 43 kb |
RCH_I57 | 126.2 | 45 | 72 | 48 | 7 | 3 | 82 | 0 | - | 2 | 18 | 73.6 kb |
RCH_I58 | 189.15 | 68 | 71 | 47 | 6 | 2 | 79 | 0 | - | 1 | 1 | 44.2 kb |
RCH_I59 | 180.82 | 65 | 82 | 58 | 6 | 6 | 94 | 1 | 144 bp | 0 | 0 | - |
RCH_S15 | 181.39 | 65 | 52 | 28 | 5 | 1 | 58 | 1 | 457 bp | 0 | 0 | - |
RCH_S18 | 121.72 | 43 | 66 | 42 | 5 | 2 | 73 | 0 | - | 0 | 0 | - |
RCH_S20 | 129.55 | 46 | 64 | 40 | 7 | 4 | 75 | 0 | - | 0 | 3 | 21.1 kb |
RCH_S21 | 215.48 | 77 | 64 | 40 | 10 | 2 | 76 | 0 | - | 1 | 5 | 43.4 kb |
RCH_S29 | 169.87 | 61 | 76 | 52 | 8 | 2 | 86 | 0 | - | 1 | 1 | 42.4 kb |
RCH_S33 | 159.97 | 57 | 112 | 88 | 11 | 5 | 128 | 0 | - | 0 | 0 | - |
RCH_S34 | 207.21 | 74 | 76 | 52 | 7 | 3 | 86 | 1 | 4.2 kb | 0 | 0 | - |
RCH_S35 | 195.87 | 70 | 61 | 37 | 4 | 2 | 67 | 1 | - | 0 | 0 | - |
RCH_S36 | 205.53 | 73 | 75 | 51 | 5 | 1 | 81 | 0 | 3.8 kb | 1 | 0 | 44.3 kb |
RCH_S38 | 179.7 | 64 | 89 | 65 | 7 | 3 | 99 | 1 | 766 bp | 1 | 0 | 4.6 kb |
RCH_S43 | 147.2 | 53 | 88 | 64 | 11 | 3 | 102 | 1 | 14 kb | 0 | 0 | - |
RCH_S44 | 233.41 | 83 | 90 | 66 | 11 | 3 | 104 | 0 | - | 1 | 0 | 42.1 kb |
RCH_S47 | 211.06 | 75 | 89 | 65 | 11 | 2 | 102 | 0 | - | 0 | 0 | - |
RCH_S49 | 197.15 | 70 | 68 | 44 | 4 | 2 | 74 | 0 | - | 0 | 0 | - |
RCH_S56 | 170.35 | 61 | 96 | 72 | 8 | 5 | 109 | 0 | - | 0 | 0 | - |
RCH_S57 | 185.6 | 66 | 76 | 52 | 7 | 3 | 86 | 0 | - | 1 | 0 | 42.9 kb |
RCH_S59 | 229.36 | 82 | 86 | 62 | 9 | 6 | 101 | 0 | - | 2 | 2 | 81.9 kb |
RCH_S60 | 202.12 | 72 | 117 | 93 | 11 | 2 | 130 | 1 | 14 kb | 0 | 1 | 35.5 kb |