Skip to main content

Table 2 The building process of half-smooth tongue sole physical map with 30,294 BAC clones

From: A first generation BAC-based physical map of the half-smooth tongue sole (Cynoglossus semilaevis) genome

Assembly Steps Contigs Singletons Physical length(Mb) Genome coverage Q-contigs/Q-clones Longest contig(kb) Avr. contig length(kb) NO. of contigs in different sizes
         ≥ 100 99-50 49-25 24-10 9-3 =2
Initial 1e-60 4200 8662 980 1.56 145/234 958 233 0 1 28 493 2312 1366
DQer (1e-60 to 1e-87) 4260 8807 989 1.58 106/133 958 232 0 0 27 476 2365 1392
Merge 1e-55, 1 3792 7445 960 1.53 106/133 1030 253 0 3 40 604 2252 893
Merge 1e-45, 1 2845 5219 894 1.43 105/133 1465 314 1 7 140 742 1598 357
Merge 1e-35, 2 2592 3356 879 1.40 103/133 1465 339 1 11 198 779 1355 248
Merge 1e-25, 2 2022 1759 838 1.34 102/133 2221 414 4 46 267 735 844 126
Merge 1e-15, 2 1485 585 797 1.27 101/133 3481 539 9 83 311 598 427 57
  1. Note: Contig assembly was performed with the tolerance of 4 and the initial cutoff value of 1e-60, followed by iteration of the end-merge, and singleton-merge routines by means of FPC v9.4. Additional end-merge and singleton-merge routines at 1e-40, 1e-30 and 1e-20 are not shown.