Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,367,676	T→C	D66D (GAT→GAC)	ycjO →	sugar ABC transporter permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,367,676	0	T	C	100.0%	16.4 / NA	6	D66D (GAT→GAC)	ycjO	sugar ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (2/4);  total (2/4)

GAAATCAGTTTTTTACGTCTGCCGCTCAATCCCAACATCGAGTCAACGTTTGTTGGGGTGAGCAACTATGTGCGTATCCTCTCCGATCCCGGCTTCTGGCATTCGCTGTGGATGACGGTCTGGTATACCGCGCTGGTGGTGGCGGGCAGCACCGTGCTC  >  NZ_CP009273/1367590‑1367748                                                                                       |                                                                         gAAATCAGTTTTTTACGTCTGCCGCTCAATCCCAACATCGAGTCAACGTTTGTTGGGGTGAGCAACTATGTGCGTATCCTCTCCGAcccc                                                                       <  1:17044/90‑1 (MQ=255)                   cTGCCGCTCAATCCCAACATCGAGTCAACGTTTGTTGGGGTGAGCAACTATGTGCGTATCCTCTCCGACCCCGGCTTCTGGCATTCGCtg                                                     <  2:510976/90‑1 (MQ=255)                             aTCCCAACATCGAGTCAACGTTTGTTGGGGTGAGCAACTATGTGCGTATCCTCTCCGACCCCGGCTTCTGGCATTCGCTGTGGATGACgg                                           <  1:345439/90‑1 (MQ=255)                                                                        gCGTATCCTCTCCGACCCCGGCTTCTGGCATTCGCTGTGGATGACGGTCTGGTATACCGCGCTGGTGGTGGCGGgca             >  1:124916/1‑77 (MQ=255)                                                                        gCGTATCCTCTCCGACCCCGGCTTCTGGCATTCGCTGTGGATGACGGTCTGGTATACCGCGCTGGTGGTGGCGGgca             <  2:124916/77‑1 (MQ=255)                                                                           tATCCTCTCCGACCCCGGCTTCTGGCATTCGCTGTGGATGACGGTCTGGTATACCGCGCTGGTGGTGGCGGGCAGCACCGTGCTc  <  1:33601/85‑1 (MQ=255)                                                                           tATCCTCTCCGACCCCGGCTTCTGGCATTCGCTGTGGATGACGGTCTGGTATACCGCGCTGGTGGTGGCGGGCAGCACCGTGCTc  >  2:33601/1‑85 (MQ=255)                                                                                       |                                                                         GAAATCAGTTTTTTACGTCTGCCGCTCAATCCCAACATCGAGTCAACGTTTGTTGGGGTGAGCAACTATGTGCGTATCCTCTCCGATCCCGGCTTCTGGCATTCGCTGTGGATGACGGTCTGGTATACCGCGCTGGTGGTGGCGGGCAGCACCGTGCTC  >  NZ_CP009273/1367590‑1367748

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑