Table 2.
Statistics of initial assembly
| AFSFASSS | AFSF | ASSS | AF | AS | SF | SS | |
|---|---|---|---|---|---|---|---|
|
Trinity |
|
|
|
|
|
|
|
| No. of contigs |
227,879 |
110,162 |
198,382 |
69,721 |
133,556 |
76,474 |
126,848 |
| Total Bases |
217,485,766 |
89,132,635 |
184,623,552 |
3,9925,904 |
115,757,220 |
55,932,501 |
100,283,444 |
| No. of contigs (> = 1 kbp) |
69,402 |
28,016 |
58,759 |
6,817 |
36,825 |
16,409 |
30,694 |
| Total Bases (in contigs > = 1 kbp) |
135,112,080 |
47,002,017 |
112,433,788 |
9,818,210 |
65,495,871 |
25,146,108 |
50,760,639 |
| Max contig length |
12,488 |
7,710 |
10,506 |
5,723 |
11,199 |
5,670 |
5,294 |
| Mean contig length |
954 |
809 |
930 |
572 |
866 |
731 |
790 |
| N50 |
1,370 |
1,060 |
1,323 |
600 |
1,165 |
903 |
1,015 |
| No. of contigs in N50 |
46,815 |
25,597 |
41,204 |
20,241 |
29,723 |
19,351 |
30,035 |
|
ABySS |
|
|
|
|
|
|
|
| No. of contigs |
571,835 |
258,087 |
478,056 |
157,039 |
334,220 |
158,856 |
279,549 |
| Total Bases |
35,941,1943 |
152,450,028 |
296,430,486 |
88,785,112 |
202,564,854 |
90,257,267 |
165,879,838 |
| No. of contigs (> = 1 kbp) |
66,393 |
22,844 |
52,783 |
11276 |
33,779 |
11,757 |
25,615 |
| Total Bases (in contigs > = 1 kbp) |
88,342,878 |
29,539,332 |
69,895,282 |
14,500,455 |
44,327,763 |
14,876,118 |
33,225,449 |
| Max contig length |
8,216 |
4,077 |
5,694 |
5,031 |
6,687 |
4,725 |
4,804 |
| Mean contig length |
628 |
590 |
620 |
565 |
606 |
568 |
593 |
| N50 |
686 |
634 |
674 |
597 |
653 |
604 |
637 |
| No. of contigs in N50 | 178,083 | 82,822 | 149,467 | 51,187 | 105,491 | 51,861 | 89,188 |
Contigs less than 300 bp were excluded.