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 shasta_scaffolds.all shasta_scaffolds.all_broken # contigs (>= 0 bp) 5515 - # contigs (>= 1000 bp) 2075 - # contigs (>= 5000 bp) 1040 2171 # contigs (>= 10000 bp) 664 1762 # contigs (>= 25000 bp) 299 1312 # contigs (>= 50000 bp) 132 1027 Total length (>= 0 bp) 2957397484 - Total length (>= 1000 bp) 2956125479 - Total length (>= 5000 bp) 2953685173 2777983292 Total length (>= 10000 bp) 2951020613 2775076151 Total length (>= 25000 bp) 2945150611 2767738635 Total length (>= 50000 bp) 2939325856 2757580485 # contigs 1350 2539 Largest contig 243676704 35885115 Total length 2954869834 2779252748 Reference length 3088269832 3088269832 Reference GC (%) 40.87 40.87 N50 153400487 8560656 NG50 142280520 7119313 N75 95151569 3780153 NG75 89499475 2499798 L50 8 98 LG50 9 118 L75 14 223 LG75 15 298 # misassemblies 814 634 # misassembled contigs 165 374 Misassembled contigs length 2934445895 1002681447 # local misassemblies 6840 6754 # scaffold gap ext. mis. 18 - # scaffold gap loc. mis. 883 - # possible TEs 134 108 # unaligned mis. contigs 84 96 # unaligned contigs 284 + 410 part 304 + 1071 part Unaligned length 18917512 18678504 Genome fraction (%) 94.119 94.123 Duplication ratio 1.062 0.998 # N's per 100 kbp 5943.31 0.00 # mismatches per 100 kbp 231.84 230.89 # indels per 100 kbp 103.28 103.29 Largest alignment 83155788 33149887 Total aligned length 2759708418 2759921693 NA50 22702006 6388553 NGA50 21751698 5507381 NA75 10375197 2907617 NGA75 8550912 1905665 LA50 42 120 LGA50 45 146 LA75 90 279 LGA75 101 378