Table 1

Analysis of previously published bulk-segregant and lab-evolution WGS datasets using MutantHuntWGS

Birkeland et al. (2010)
SRA IDSRR064545SRR064546
Total Reads (% Mapped)19,782,779 (92.80%)20,015,390 (89.57%)Additional Output Filtering
Variants Called in Control10,022Filtering byCutoffVariant count (%)
Variants Called in Experimental9,646Variant quality score>13021 (0.21%)
Variants Unique to the Experimental strain with Variant Quality Scores > 100 (% of total)188 (1.95%)SnpEff Impact>Moderate55 (0.57%)
CDS Variants in SIFT output (% of total)152 (1.58%)Variant Quality Score + Impact>130 + >Moderate6 (0.06%)
Published mutation (s) IdentifiedYesSIFTDeleterious6 (0.06%)
Ottilie et al. (2017)
SRA IDSRR3480136SRR3490425SRR3490399SRR3490397SRR3490304
Total Reads (Percent Mapped)14,684,843 (93.61%)7,935,729 (98.11%)3,629,049 (97.53%)5,611,439 (97.80%)6,904,333 (97.91%)
Variants Called in Control526
Variants Called in Experimental367298336377
Variants Unique to the Experimental strain with Variant Quality Scores > 100 (% of total)11 (3.00%)4 (1.34%)7 (2.08%)8 (2.12%)
CDS Variants in SIFT output (% of total)4 (1.09%)2 (0.67%)4 (1.19%)5 (1.33%)
Published Mutation(s) IdentifiedYesYesYesYes
Goldgof et al. (2016)
SRA IDSRR3480136SRR3480251SRR3480237SRR3480212SRR3480267
Total Reads (Percent Mapped)14,684,843 (93.61%)6,347,816 (94.49%)7,480,005 (64.04%)3,058,951 (98.11%)2,545,805 (97.51%)
Variants Called in Control526
Variants Called in Experimental487316292301
Variants Unique to the Experimental strain with Variant Quality Scores > 100 (% of total)10 (2.05%)8 (2.53%)6 (2.05%)4 (1.33%)
CDS Variants in SIFT output (% of total)4 (0.82%)3 (0.95%)4 (1.37%)2 (0.66%)
Published Mutation(s) IdentifiedYesYesYesYes