Table 2.
Progress in the soybean physical map (builds 2–4) shown in SoyGD
| Automated | Manual edit | Manual edit | |
|---|---|---|---|
| Build 2 | Build 3 | Build 4 | |
| September 2001 | August 2002 | October 2003 | |
| Total (Repeat) | |||
| BAC clones in FPC database | 81 024 | 78 001 | 78 001 |
| BACs used in contig assembly | 75 568 | 76 749a | 72 942b |
| Number of singletons | 5884 | 3702 | 27 810 |
| Marker anchored singletons | 0 | 0 | 120 |
| Clones in contigs (fold genome) | 69 684 | 73 047 | 45 130 |
| Fold genome in contigs | 8.7 | 9.1 | 5.6 |
| Number of contigs | 5597 | 2905 | 2854 (646) |
| Anchoring markers | 0 | 385 | 404 |
| Anchored contigs | 0 | 781 | 742 (181) |
| Q contigs | n/a | 1040 | 0 |
| Contigs that contained | |||
| >25 clones | 220 | 921 | 477 (268) |
| 10–25 clones | 3038 | 920 | 1458 (433) |
| 3–9 clones | 1845 | 850 | 820 (0) |
| 2 clones | 385 | 216 | 99 (0) |
| Unique bands within contigs | 396 843 | 345 457 | 258 240 (54 560)c |
| Length of the contigs (Gb) | 1.667d | 1.451d | 1.037 (0.258) |
aAdjusted for 1252 ‘NoFp’ 0 band clones only (includes all clones with ≥1 band).
bAdjusted for all 0–4 band clones, contamination-suspect clones and most high band number (>65) clones.
cBased on 4.5 kb per unique band, for 2854 contigs containing ∼68 unique bands in 15 clones, 264 duplicated region contigs containing ∼68 unique bands in 30 clones, 15 840 unique bands, and 406 highly repeated region contigs containing ∼68 unique bands in 60 clones, 48 720 unique bands.
dBased on 4.0 kb per unique band.