Supplementary Table 1. Runtimes for alignment of whole-genome assemblies Pairwise alignments: Microbial genome: Size Microbial genome: Size Runtime Bartonella bacilliformis 1.4Mb Bartonella Quintana st r. 1.6Mb 7 min KC583 Toulouse Bartonella bacilliformis 1.4Mb Bartonella henselae str. 1.9Mb 8 min KC583 Houston-1 Bartonella henselae str. 1.9Mb Bartonella - tribocorum 2.6Mb 31 min Houston-1 CIP 105476 plasmidBtr Yeast genome: Candida 10.7Mb Yeast genome: 13.3Mb 1 h. 52 min tenuis Spathaspora assalidarum Fungal genome: 30Mb Fungal genome: 71Mb 7 h. 13 min Batrachochytrium Piromyces sp. E2 dendrobatidis JAM81 Fungal genome: 30Mb Fungal genome: 23.7Mb 7 h. 30 min Batrachochytrium Batrachochytrium dendrobatidis JAM81 dendrobatidis JEL423 Multiple alignment of microbial genomes: Acetobacter pasteurianus IFO 3283-07 (2.9Mb) Acetohalobium arabaticum DSM 5501 (2.5Mb) Coprococcus sp. ART55/1 (3.1Mb) Runtime: 4 h.10 min.
Supplementary Table 1. Runtimes for alignment of whole-genome assemblies Pairwise alignments: Microbial genome: Size Microbial genome: Size Runtime Bartonella bacilliformis KC583 1.4Mb Bartonella Quintana st r. Toulouse 1.6Mb 7 min Bartonella bacilliformis KC583 1.4Mb Bartonella henselae str. Houston-1 1.9Mb 8 min Bartonella henselae str. Houston-1 1.9Mb Bartonella - tribocorum CIP 105476 plasmidBtr 2.6Mb 31 min Yeast genome: Candida tenuis 10.7Mb Yeast genome: Spathaspora assalidarum 13.3Mb 1 h. 52 min Fungal genome: Batrachochytrium dendrobatidis JAM81 30Mb Fungal genome: Piromyces sp. E2 71Mb 7 h. 13 min Fungal genome: Batrachochytrium dendrobatidis JAM81 30Mb Fungal genome: Batrachochytrium dendrobatidis JEL423 23.7Mb 7 h. 30 min Multiple alignment of microbial genomes: Acetobacter pasteurianus IFO 3283-07 (2.9Mb) Acetohalobium arabaticum DSM 5501 (2.5Mb) Coprococcus sp. ART55/1 (3.1Mb) Runtime: 4 h.10 min.