Table 4 Quality of assemblies based on sub-samples of fractions of the complete set of ONT reads. In all cases, the assembly yields contiguous sequences of the chromosome and two plasmids. u.u.: uncorrected, unpolished; i.p. Illumina-polished; c.c.: computationally corrected
From: Assembling highly repetitive Xanthomonas TALomes using Oxford Nanopore sequencing
Fraction | #reads | Mean cov. | Assembly | Contig N50 | Busco | #TALEs | #iTALEs | #pseudo genes |
|---|---|---|---|---|---|---|---|---|
100.00% | 579,937 | 630 | u.u. | 4,989,365 | C:94.6% | 0 | 0 | 20 |
i.p. | 4,989,976 | C:98.8% | 19 | 1 | 1 | |||
c.c. | 4,989,458 | C:94.6% | 20 | 1 | 0 | |||
75.00% | 434,953 | 473 | u.u. | 4,989,461 | C:93.8% | 0 | 0 | 20 |
i.p. | 4,989,963 | C:98.9% | 20 | 1 | 0 | |||
c.c. | 4,989,546 | C:93.8% | 20 | 1 | 0 | |||
50.00% | 289,968 | 315 | u.u. | 4,989,470 | C:93.2% | 0 | 0 | 20 |
i.p. | 4,989,960 | C:98.9% | 20 | 1 | 0 | |||
c.c. | 4,989,557 | C:93.2% | 20 | 1 | 0 | |||
25.00% | 144,984 | 159 | u.u. | 4,989,306 | C:92.2% | 0 | 0 | 19 |
i.p. | 4,989,957 | C:98.9% | 20 | 1 | 0 | |||
c.c. | 4,989,394 | C:92.2% | 20 | 1 | 0 | |||
12.50% | 72,492 | 79 | u.u. | 4,989,133 | C:89.8% | 0 | 0 | 19 |
i.p. | 4,989,945 | C:98.9% | 16 | 1 | 2 | |||
c.c. | 4,989,220 | C:89.8% | 20 | 1 | 0 | |||
6.25% | 36,246 | 40 | u.u. | 4,988,747 | C:85.2% | 0 | 1 | 17 |
i.p. | 4,989,905 | C:98.8% | 13 | 1 | 3 | |||
c.c. | 4,988,857 | C:85.2% | 20 | 1 | 0 | |||
3.12% | 18,123 | 20 | u.u. | 4,988,237 | C:73.9% | 0 | 0 | 17 |
i.p. | 4,989,885 | C:98.8% | 10 | 1 | 7 | |||
c.c. | 4,988,371 | C:73.9% | 20 | 1 | 0 |