Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	579,943	(T)8→7	intergenic (+57/+193)	appY → / ← ompT	DNA‑binding transcriptional activator AppY/omptin family outer membrane protease OmpT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	579,936	0	T	.	100.0%	10.5 / NA	4	intergenic (+50/+200)	appY/ompT	DNA‑binding transcriptional activator AppY/omptin family outer membrane protease OmpT
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (0/4);  total (0/4)

AAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATAC  >  NZ_CP009273/579900‑580000                                     |                                                                 aaGTTGTCTACATGTTAATTATAATATTATACAGCG‑TTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGcc            <  2:222911/90‑1 (MQ=255) aaGTTGTCTACATGTTAATTATAATATTATACAGCG‑TTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGcc            <  2:355944/90‑1 (MQ=255) aaGTTGTCTACATGTTAATTATAATATTATACAGCG‑TTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGcc            <  2:58774/90‑1 (MQ=255)           cATGTTAATTATAATATTATACAGCG‑TTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTatac  <  2:133926/90‑1 (MQ=255)                                     |                                                                 AAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATAC  >  NZ_CP009273/579900‑580000

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑