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) 1414860 - # contigs (>= 1000 bp) 22459 - # contigs (>= 5000 bp) 3097 139176 # contigs (>= 10000 bp) 956 83629 # contigs (>= 25000 bp) 174 26261 # contigs (>= 50000 bp) 45 5700 Total length (>= 0 bp) 3357582832 - Total length (>= 1000 bp) 3020949295 - Total length (>= 5000 bp) 2980355519 2398748349 Total length (>= 10000 bp) 2965940361 1999194400 Total length (>= 25000 bp) 2954485654 1097150627 Total length (>= 50000 bp) 2950076055 395735092 # contigs 6443 281383 Largest contig 249098013 263849 Total length 2993151224 2693505287 Reference length 3088269832 3088269832 Reference GC (%) 40.87 40.87 N50 153247356 19969 NG50 153247356 16551 N75 95682793 9725 NG75 95682793 6020 L50 8 37447 LG50 8 48309 L75 14 85752 LG75 14 124157 # misassemblies 204 130 # misassembled contigs 113 124 Misassembled contigs length 2853683452 2525295 # local misassemblies 1096 1153 # scaffold gap ext. mis. 68 - # scaffold gap loc. mis. 103023 - # possible TEs 170 16 # unaligned mis. contigs 29 33 # unaligned contigs 504 + 274 part 19088 + 1137 part Unaligned length 9490879 12773950 Genome fraction (%) 90.969 90.736 Duplication ratio 1.117 1.006 # N's per 100 kbp 9986.23 5.14 # mismatches per 100 kbp 96.25 94.25 # indels per 100 kbp 27.97 23.00 Largest alignment 122278787 263815 Total aligned length 2688803196 2679012088 NA50 39329527 19915 NGA50 38446687 16504 NA75 21531675 9663 NGA75 19382043 5948 LA50 22 37516 LGA50 24 48409 LA75 48 86012 LGA75 51 124743