All statistics are based on contigs of size >= 3000 bp, unless otherwise noted (e.g., "# contigs (>= 0 bp)" and "Total length (>= 0 bp)" include all contigs). Assembly abyss_scaffolds.all abyss_scaffolds.all_broken # contigs (>= 0 bp) 1388109 - # contigs (>= 1000 bp) 5188 - # contigs (>= 5000 bp) 1180 131334 # contigs (>= 10000 bp) 680 82488 # contigs (>= 25000 bp) 254 28729 # contigs (>= 50000 bp) 102 7038 Total length (>= 0 bp) 3284879424 - Total length (>= 1000 bp) 2949901426 - Total length (>= 5000 bp) 2942077834 2446055784 Total length (>= 10000 bp) 2938509609 2093936120 Total length (>= 25000 bp) 2931816480 1243098538 Total length (>= 50000 bp) 2926522288 497711348 # contigs 1851 264543 Largest contig 246914234 263849 Total length 2944778873 2710647573 Reference length 3088269832 3088269832 Reference GC (%) 40.87 40.87 N50 151398056 22581 NG50 141811792 18863 N75 94945606 10871 NG75 90188813 6829 L50 8 33451 LG50 9 42606 L75 14 76644 LG75 15 109238 # misassemblies 612 130 # misassembled contigs 143 124 Misassembled contigs length 2923469914 2727153 # local misassemblies 4939 1259 # scaffold gap ext. mis. 190 - # scaffold gap loc. mis. 65423 - # possible TEs 250 18 # unaligned mis. contigs 42 47 # unaligned contigs 341 + 264 part 19237 + 1268 part Unaligned length 13368644 13729344 Genome fraction (%) 92.348 91.396 Duplication ratio 1.081 1.004 # N's per 100 kbp 7892.53 5.28 # mismatches per 100 kbp 111.10 95.74 # indels per 100 kbp 29.26 23.13 Largest alignment 101995038 263815 Total aligned length 2709419462 2695251115 NA50 23922938 22506 NGA50 22617912 18799 NA75 11396124 10808 NGA75 10243243 6746 LA50 33 33520 LGA50 36 42706 LA75 77 76908 LGA75 87 109800