Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	3,538,499	C→T	L149L (TTG→TTA)	rhaS ←	DNA‑binding transcriptional activator, L‑rhamnose‑binding

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	3,538,499	0	C	T	97.9%	120.6 / ‑5.1	47	L149L (TTG→TTA)	rhaS	DNA‑binding transcriptional activator, L‑rhamnose‑binding
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base T (46/0);  total (47/0)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

GGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAACAAGATCTCGCGACTGGCGGTCG  >  W3110S.gb/3538450‑3538521                                                  |                       ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTcgcg             >  1:1469357/1‑61 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:584656/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:195369/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:273616/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:276455/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:328820/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:347682/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:365372/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:39772/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:505498/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:527773/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:538126/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:185870/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:586751/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:595317/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:599849/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:684083/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:776163/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:781901/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:851032/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:877445/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:905276/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:911230/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:993597/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1321505/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1007127/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1053240/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1098113/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1129160/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1141375/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1206670/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1237044/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1298377/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1301128/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1311359/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:131526/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:185978/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1357562/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1396944/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1403473/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1426175/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1452794/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:154706/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:174307/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:181286/1‑62 (MQ=255) ggTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAATAATTGCATAAATAAGATCTCGCGa            >  1:1001358/1‑62 (MQ=255)           cAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAACAAGATCTCGCGACTGGCGGTCg  >  1:1426836/1‑62 (MQ=255)                                                  |                       GGTTCTCCTGCAAACTGCTTTTACGCAGCAAGAGCAGTAATTGCATAAACAAGATCTCGCGACTGGCGGTCG  >  W3110S.gb/3538450‑3538521

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑