Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	3,532,542	C→T	T279T (ACC→ACT)	cpxA →	sensory histidine kinase in two‑component regulatory system with CpxR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	3,532,542	0	C	T	100.0%	87.5 / NA	27	T279T (ACC→ACT)	cpxA	sensory histidine kinase in two‑component regulatory system with CpxR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (27/0);  total (27/0)

AAGGAACTGGAGCGTATTGAAACCGAAGCGCAACGTCTGGA  >  W3110S.gb/3532519‑3532559                        |                  aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1902002/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:531349/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:512977/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:509447/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:487094/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:307937/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:298833/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:2745853/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:2663056/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:2529901/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:2524967/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:2373788/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:2161415/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1007101/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1829006/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1804195/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1794563/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1765679/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1740286/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1426835/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1416296/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1377619/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1285291/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1170732/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1111133/1‑41 (MQ=255) aaGGAACTGGAGCGTATTGAAACTGAAGCGCAACGTCTGGa  >  1:1062995/1‑41 (MQ=255) aaGGAACTGGAGCGTATT‑AAACTGAAGCGCAACGTCTGGa  >  1:2428991/1‑40 (MQ=37)                        |                  AAGGAACTGGAGCGTATTGAAACCGAAGCGCAACGTCTGGA  >  W3110S.gb/3532519‑3532559

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑