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Table 3 Differences between the assemblies. This table lists all 23 differences between our assembly and the existing Illumina assembly. The validation results when taking the FES into account are also given

From: SMRT sequencing only de novo assembly of the sugar beet (Beta vulgaris) chloroplast genome

Position cp_2320 Position KJ8018 Type cp_2320 correct with respect to FES Influenced annotation Located in
1355 1355 Insertion in cp_2320 (61 bp) Yes - LSCR
1426 1361 Substitution (1 bp) Yes - LSCR
1430 1365 Insertion in cp_2320 (1 bp) Yes - LSCR
12,633 12,567 Insertion in cp_2320 (1 bp) Yes - LSCR
29,255 29,188 Deletion in cp_2320 (5 bp) Yes - LSCR
35,514 35,452 Deletion in cp_2320 (2 bp) Yes - LSCR
45,756 45,696 Substitution (1 bp) Yes - LSCR
45,773 45,713 Deletion in cp_2320 (1 bp) Yes - LSCR
45,776 45,717 Deletion in cp_2320 (1 bp) Yes - LSCR
45,780 45,722 Deletion in cp_2320 (1 bp) Yes - LSCR
51,980 51,923 Deletion in cp_2320 (4 bp) Yes - LSCR
56,686 56,633 Deletion in cp_2320 (1 bp) Yes accD LSCR
60,118 60,066 Insertion in cp_2320 (2 bp) Yes cemA LSCR
63,266 63,212 Substitution (1 bp) Yes psbL LSCR
84,321 84,267 Insertion in cp_2320 (1 bp) Yes - IR 1
96,607 96,552 Deletion in cp_2320 (6 bp) Yes - IR 1
100,122 100,073 Deletion in cp_2320 (1 bp) No - IR 1
111,817 111,769 Substitution 6 bp (1 bp) Yes - SSCR
111,858 111,810 Insertion in cp_2320 (45 bp) Yes ccsA SSCR
114,513 114,420 Substitution (1 bp) Yes ndhD SSCR
117,806 117,713 Deletion in cp_2320 (1 bp) Yes ndhAa SSCR
136,237 136,145 Deletion in cp_2320 (6 bp) Yes - IR 2
148,514 148,428 Insertion in cp_2320 (1 bp) Yes - IR 2
  1. aDeletion occurs in intron and does hence not influence the coding region