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. 2020 Jun 8;10:9189. doi: 10.1038/s41598-020-66053-2

Table 3.

Statistics of the four assembled genomes (k = 63), relative to the different steps of the assembly procedure (de novo, Gapclosing, filtering and reference-guided).

Genotype Metrics De novo Gap closed Filtered > 500 bp Reference guided
Corno Number of scaffolds 1,994,391 1,994,391 313,692 4,688
Total size of scaffolds (bp) 3,238,887,426 3,156,174,802 2,888,201,005 2,952,523,284
Longest scaffold 977,366 967,969 967,969 304,682,413
Shortest scaffold 100 100 500 800
Average size (scaffolds, bp) 1,624 1,583 9,207 629,804
N50 47,527 47,339 55,304 244,870,051
L50 15,812 15,493 12,873 6
% of Ns in scaffolds 6.63 0.04 0.03 2.97
Number of genes 35,484 29,204
Cuneo Number of scaffolds 1,209,809 1,209,809 183,951 4,062
Total size of scaffolds (bp) 3,015,917,026 3,003,730,531 2,856,195,490 2,888,888,923
Longest scaffold 785,116 783,752 783,752 298,303,901
Shortest scaffold 100 100 500 800
Average size (scaffolds, bp) 2,493 2,483 15,527 711,199
N50 53,466 53,354 57,217 239,928,576
L50 14,568 14,539 13,205 6
% of Ns in scaffolds 3.92 0.04 0.03 1.76
Number of genes 35,518 29,300
Quadrato Number of scaffolds 1,773,028 1,773,028 289,008 4,688
Total size of scaffolds (bp) 3,196,719,955 3,111,823,022 2,880,333,039 2,938,129,169
Longest scaffold 684,241 678,098 678,098 303,210,577
Shortest scaffold 100 100 500 800
Average size (scaffolds, bp) 1,803 1,755 9,966 626,734
N50 46,314 46,168 52,573 243,527,465
L50 16,181 15,845 13,497 6
% of Ns in scaffolds 6.68 0.04 0.03 2.74
Number of genes 35,538 29,288
Tumaticot Number of scaffolds 1,191,858 1,191,858 173,746 4,322
Total size of scaffolds (bp) 3,088,650,784 3,016,051,866 2,871,230,234 2,901,582,212
Longest scaffold 788,112 780,295 780,295 300,041,623
Shortest scaffold 100 100 500 800
Average size (scaffolds, bp) 2,591 2,531 16,525 671,352
N50 58,072 57,584 61,963 240,199,676
L50 13,578 13,360 12,147 6
% of Ns in scaffolds 6.09 0.03 0.02 1.64
Number of genes 35,723 29,465

1The reference guided assembly contained also chromosome zero.