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%	19.5 / NA	6	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 . (1/5);  total (1/5)

AATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACAT  >  NZ_CP009273/579877‑580002                                                            |                                                                   aaTTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCG‑TTTTTTTGATGTGATATTCTGGAACCATTaa                                     <  2:276368/90‑1 (MQ=255)      aCTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCG‑TTTTTTTGATGTGATATTCTGGAACCATTAATTTGt                                <  2:13362/90‑1 (MQ=255)                 ttattaCAAGTTGTCTACATGTTAATTATAATATTATACAGCG‑TTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGc                     >  2:297016/1‑90 (MQ=255)                        aaGTTGTCTACATGTTAATTATAATATTATACAGCG‑TTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGcc              <  2:217603/90‑1 (MQ=255)                                  cATGTTAATTATAATATTATACAGCG‑TTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTatac    <  1:342605/90‑1 (MQ=255)                                    tGTTAATTATAATATTATACAGCG‑TTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTatacat  <  2:59410/90‑1 (MQ=255)                                                            |                                                                   AATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACAT  >  NZ_CP009273/579877‑580002

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑