Table 2 General statistics of genome assemblies of PXO35 using different combinations of input reads, assembly tools and polishing methods including computational correction of TALE genes (comp. correction), listing the number of contigs (#contigs), additional contigs that are likely related to plasmid sequences (#plasmid contigs), the contig N50 value, and Busco completeness per assembly
From: Assembling highly repetitive Xanthomonas TALomes using Oxford Nanopore sequencing
Technology | Assembly | Polishing | #contigs | #plasmid contigs | contig N50 | Busco |
|---|---|---|---|---|---|---|
Illumina | MaSuRCA | Illumina (pilon) | 311 | 3 | 26,708 | 98.6% |
PacBio | HGAP4 | PacBio (Arrow) | 3 | 2 | 4,203,214 | 98.6% |
PacBio | HGAP4 | Illumina (pilon) | 3 | 2 | 4,203,280 | 98.9% |
ONT | Flye | comp. correction | 1 | 2 | 4,989,458 | 94.6% |
ONT | Flye | Illumina (pilon) | 1 | 2 | 4,989,970 | 98.8% |
ONT | Flye | PacBio (Arrow) | 1 | 2 | 4,990,009 | 98.7% |
ONT | Flye | Homopolish (bacteria) | 1 | 2 | 4,990,026 | 98.7% |
ONT | Flye | Homopolish (X. oryzae) | 1 | 2 | 4,989,976 | 98.6% |
PacBio + Illumina | MaSuRCA | none | 28 | 2 | 400,599 | 95.9% |
ONT + Illumina | Unicycler | none | 1 | 2 | 4,989,579 | 98.9% |