Table 4 Summary of improvements made to the initial genome assemblies by PAGIT
Isolate | Initial assembly statistics: No. N50 Av. (kb) | Gaps closed by IMAGE | ICORN Sequence corrections: SNP Indel | RATT Gene annotations transferred | Final assembly statistics: No. N50 Av. Size (kb) | Paired reads aligning concordantly (%) | Contaminant sequence NC BCT (kb) |
|---|---|---|---|---|---|---|---|
UKH3 | 1902 94.7 4.9 | 330 | 210 27 | 3649 | 34 1000 268.7 9136 | 87.5 | 41.1 0.0 |
UKH4 | 2375 29.1 4.0 | 343 | 584 99 | 3503 | 110 1032 84.4 9293 | 93.5 | 40.1 14.1 |
UKH5 | 1305 29.9 7.0 | 437 | 189 61 | 3569 | 65 1006 142.4 9257 | 96.2 | 6.9 2.4 |
UKP2 | 3084 105.2 3.1 | 174 | 182 48 | 3600 | 67 1011 136.7 9164 | 85.1 | 89.6 1.6 |
UKP3 | 919 57.5 10.0 | 259 | 226 60 | 3546 | 55 1009 167.7 9224 | 90.2 | 2.0 0.0 |
UKP4 | 1966 49.3 4.8 | 334 | 170 108 | 3553 | 52 891 177.4 9222 | 91.0 | 7.3 0.7 |
UKP5 | 3830 9.7 2.4 | 1435 | 341 80 | 3527 | 47 1031 198.4 9329 | 88.6 | 31.4 14.6 |
UKP6 | 16895 40.3 0.8 | 274 | 3144 394 | 3565 | 417 1014 22.7 9471 | 81.2 | 685.7 69.5 |
UKP7 | 1158 30.2 7.8 | 321 | 185 80 | 3556 | 55 1026 168.7 9278 | 90.4 | 2.5 0.0 |
UKP8 | 1792 42.0 5.2 | 356 | 152 47 | 3545 | 63 1015 147.4 9290 | 93.5 | 37.9 24.4 |