Table 1.
Generation of 454/FLX data and assembly statistics of ICPW 29, ICPA 2039, ICPB 2039, and ICPH 2433
| Genotypes | Number of sequence reads (length) generated | Newbler |
Celera |
CLC Bio |
||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Number of scaffolds | Bases in scaffolds (bp) | N50 scaffold size (bp) | Number of large contigsa | Bases in large contigs (bp) | Number of scaffolds | Bases in scaffolds (bp) | Number of big contigsb | Big contig length (bp) | Number of contigs | Bases in contigs (bp) | ||
| ICPW 29 | 74 109 (23.8 Mb)/164 071 (53.4 Mb)c | 156/18c (4)d | 723 814/672 137c (575 487)e | 108 193/159 243c | 202/425c | 694 265/858 696c | 34 | 618 692 | 15 | 501 689 | 392 | 951 760 |
| ICPA 2039 | 121 170 (38.8 Mb) | 30 (7)d | 672 918 (532 372)e | 169 595 | 345 | 828 279 | 84 | 662 357 | 20 | 475 091 | 1348 | 1 782 550 |
| ICPB 2039 | 51 723 (15.6 Mb)/117 163 (36.4 Mb)c | 387/52c (34)d | 415 181/459 802c (335 926)e | 1153/12 823c | 430/669c | 404 882/716 244c | 113 | 199 602 | 0 | 0 | 1032 | 529 436 |
| ICPH 2433 | 116 021 (37.1 Mb) | 108 (9)d | 681 810 (539 865)e | 169 903 | 184 | 677 158 | 44 | 577 054 | 18 | 468 611 | 564 | 1 227 305 |
aNewbler assembler classifies contigs >500 bp as large contigs.
bCelera assembler classifies contigs >10 kb as big contigs.
cData and assembly statistics of ICPW 29 and ICPB 2039 additional reads.
dNumber of scaffolds from the mitochondrial genome.
eBase in scaffolds from the mitochondrial genome.