Table 2 Genetic variation present within the SSME genome as compared to the wt-FV3 reference genome

21,933-24,515 bp

24 bp substitutions

24aa substitutions & 9aa insertion in 19R

27 bp insertion

30,851 bp

1 bp substitution

Loss of a start codon in 24R; new start codon is 27 bp downstream, thus shortening ORF by 9aa

51,102 bp

1 bp deletion

Frameshift mutation in 43R

52,769 bp

1 bp deletion

Frameshift mutation and loss of original stop codon in 46L; new stop codon is 319 bp upstream, thus lengthening 46L

54,805 bp

1 bp deletion

Loss of original stop codon in 50L, leading to the combination of ORFs 49L and 50L

54,938 bp

39 bp deletion

13aa deletion in 49/50L

76,105 bp

757 bp deletion

Deletion of all of 65L and the majority of 66L

94,712 bp

18 bp deletion

6aa deletion in 87L

10,4050 bp

67 bp deletion

67 bp deletion in non-coding region between 97R and 98R