Table 3 Comparison of PXO35 assemblies on level of TALEs. Per assembly, we record the total number of TALE genes (#TALEs), the number of iTALEs with a truncated C-terminus (#iTALEs), the number of TALE pseudo genes (#pseudo genes), and the number of TALE classes (#classes)
From: Assembling highly repetitive Xanthomonas TALomes using Oxford Nanopore sequencing
Technology | Assembly | Polishing | #TALEs | #iTALEs | #pseudo genes | #classes |
|---|---|---|---|---|---|---|
Illumina | MaSuRCA | Illumina (pilon) | 1 | 0 | 1 | 0 |
PacBio | HGAP4 | PacBio (Arrow) | 13 | 1 | 9 | 13 |
PacBio | HGAP4 | Illumina (pilon) | 15 | 1 | 7 | 13 |
ONT | Flye | comp. correction | 20 | 1 | 0 | 19 |
ONT | Flye | Illumina (pilon) | 19 | 1 | 1 | 18 |
ONT | Flye | PacBio (Arrow) | 20 | 1 | 0 | 19 |
ONT | Flye | Homopolish (bacteria) | 17 | 1 | 1 | 16 |
ONT | Flye | Homopolish (X. oryzae) | 17 | 1 | 1 | 16 |
PacBio + Illumina | MaSuRCA | none | 0 | 0 | 4 | 0 |
ONT + Illumina | Unicycler | none | 0 | 0 | 21 | 0 |