Table 5.
Varying Error
| Error | Ctgs | Bury (%) | F− | F+ | Qs | Order |
|---|---|---|---|---|---|---|
| None | 145 + 9 | 69 | 156 − 9 | 36 | 4 (1) | (66, 12, 0) |
| Ends | 156 + 10 | 63 | 182 − 20 | 36 | 4 (1) | (548, 93, 0) |
| Vectora | 133 + 9 | 67 | 153 − 17 | 38 | 24 (1) | (212, 76, 0) |
| 4% F+ | 158 + 10 | 67 | 176 − 14 | 36 | 0 (0)b | (258, 59, 0) |
| 4% F− | 153 + 15 | 68 | 191 − 30 | 36 | 0 (0)b | (521, 78, 0) |
| Tolc | 174 + 17 | 51 | 257 − 73 | 30 | 0 (0)b | (249, 224, 0) |
| Alld | 276 + 43 | 9 | 547 − 229 | 21 | 13 (5) | (1520, 1792, 0) |
(Ctgs) contigs; (F−) false-negative; (F+) false-positive; (Qs) questionable; (Tol) tolerance.
The data set has a 15× coverage, 10,015 clones, seven gaps, 145–185 kb lengths, one chimeric contig, and uses 7 tolerance and a 1e-10 cutoff.
a
Adds a band of 1387, 3695, and 3766 to 85%, 33%, and 33% of the clones, respectively.
b
The F+'s occurred at the ends of two contigs, so the incorrectly merged contig assembled without causing a stack, i.e., Q clones.
c
Adds or subtracts a tolerance of 0 through 7 for (16, 20, 18, 15, 12, 9, 6, 4) of the bands, respectively.
d
Uses all of the previous error.