Table 3

Scaffold statistics for whole-genome and compartmentalized shotgun assemblies.

Scaffold size
All>30 kbp>100 kbp>500 kbp>1000 kbp
Compartmentalized shotgun assembly
No. of bp in scaffolds2,905,568,2032,748,892,4302,700,489,9062,489,357,2602,248,689,128
(including intrascaffold gaps)
No. of bp in contigs2,653,979,7332,524,251,3022,491,538,3722,320,648,2012,106,521,902
No. of scaffolds53,5912,8451,9351,060721
No. of contigs170,033112,207107,19993,13882,009
No. of gaps116,442109,362105,26492,07881,288
No. of gaps ≤1 kbp72,09169,17567,28959,91553,354
Average scaffold size (bp)54,217966,2191,395,6022,348,4503,118,848
Average contig size (bp)15,60922,49623,24224,91625,686
Average intrascaffold gap size (bp)2,1612,0541,9851,8321,749
Largest contig (bp)1,988,3211,988,3211,988,3211,988,3211,988,321
% of total contigs10095948779
Whole-genome assembly
No. of bp in scaffolds (including intrascaffold gaps)2,847,890,3902,574,792,6182,525,334,4472,328,535,4662,140,943,032
No. of bp in contigs2,586,634,1082,334,343,3392,297,678,9352,143,002,1841,983,305,432
No. of scaffolds118,9682,5071,637818554
No. of contigs221,03699,18995,49484,64176,285
No. of gaps102,06896,68293,85783,82375,731
No. of gaps ≤1 kbp62,35660,34359,15654,07949,592
Average scaffold size (bp)23,9381,027,0411,542,6602,846,6203,864,518
Average contig size (bp)11,70223,53424,06125,31925,999
Average intrascaffold gap size (bp)2,5602,4872,4262,2132,082
Largest contig (bp)1,224,0731,224,0731,224,0731,224,0731,224,073
% of total contigs10090898377