All statistics are based on contigs of size >= 500 bp, unless otherwise noted (e.g., "# contigs (>= 0 bp)" and "Total length (>= 0 bp)" include all contigs). Assembly abyss_scaffolds.assigned abyss_scaffolds.assigned_broken abyss_scaffolds.all abyss_scaffolds.all_broken # contigs (>= 0 bp) 6 8778 49694 10150 # contigs (>= 1000 bp) 6 6765 389 7158 # contigs (>= 5000 bp) 6 4085 59 4139 # contigs (>= 10000 bp) 6 2566 19 2575 # contigs (>= 25000 bp) 6 999 7 1000 # contigs (>= 50000 bp) 6 325 6 325 Total length (>= 0 bp) 100398524 92804448 108074926 94728004 Total length (>= 1000 bp) 100398524 91742587 101653463 92996006 Total length (>= 5000 bp) 100398524 84026296 100874869 84474943 Total length (>= 10000 bp) 100398524 73239703 100609233 73382207 Total length (>= 25000 bp) 100398524 48281707 100441820 48311929 Total length (>= 50000 bp) 100398524 24780074 100398524 24780074 # contigs 6 8778 1365 10151 Largest contig 21015583 213770 21015583 213770 Total length 100398524 92804448 102322887 94728004 Reference length 100272607 100272607 100272607 100272607 Reference GC (%) 35.44 35.44 35.44 35.44 N50 17489396 26237 17489396 25592 NG50 17489396 23715 17489396 23750 N75 15166573 11832 15166573 11103 NG75 15166573 8941 15166573 9013 L50 3 926 3 963 LG50 3 1076 3 1075 L75 5 2231 5 2353 LG75 5 2775 5 2768 # misassemblies 198 49 204 52 # misassembled contigs 6 48 12 51 Misassembled contigs length 100398524 956487 100428911 963325 # local misassemblies 142 105 146 107 # scaffold gap ext. mis. 67 0 67 0 # scaffold gap loc. mis. 5063 0 5064 0 # unaligned mis. contigs 0 1 7 8 # unaligned contigs 0 + 6 part 54 + 26 part 8 + 19 part 64 + 39 part Unaligned length 112157 40402 144653 72965 Genome fraction (%) 92.202 92.169 93.961 93.928 Duplication ratio 1.085 1.004 1.084 1.005 # N's per 100 kbp 7566.57 2.85 7424.94 2.81 # mismatches per 100 kbp 11.03 10.14 13.67 12.77 # indels per 100 kbp 6.35 3.72 6.63 4.04 Largest alignment 3438932 213770 3438932 213770 Total aligned length 92724426 92738192 94610498 94623803 NA50 1140570 26117 1113956 25523 NGA50 1140570 23651 1140570 23652 NA75 587419 11717 561769 10992 NGA75 587419 8862 587419 8954 LA50 26 930 27 967 LGA50 26 1080 26 1080 LA75 57 2243 59 2366 LGA75 57 2791 57 2784