Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,965,782	T→G	E389D (GAA→GAC)	tar ←	methyl‑accepting chemotaxis protein II

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,965,782	0	T	G	100.0%	46.3 / NA	16	E389D (GAA→GAC)	tar	methyl‑accepting chemotaxis protein II
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (8/8);  total (8/8)

AGGGCTTTGATCTCTTTTGCCGCCTGGGCGCTGCGACTGGCAAGATTACGCACTTCACCCGCCACCACGGCAAAACCACGGCCCTGTTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGCGCGAGGATATTAGTCTGGAAGGCAATACCGTCGATAACGCTGAT  >  NZ_CP009273/1965696‑1965862                                                                                       |                                                                                 aGGGCTTTGATCTCTTTTGCCGCCTGGGCGCTGCGACTGGCAAGATTGCGCACTTCACCCGCCACCACGGCAAAACCACGGCCCTGGTCa                                                                               >  1:506881/1‑90 (MQ=255)            ctctTTTGCCGCCTGGGCGCTGCGACTGGCAAGATTACGCACTTCACCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCAcgcgc                                                                    >  1:633712/1‑90 (MQ=255)            ctctTTTGCCCCCTGGGCGCGGCGACTGGCAAGATTACGCACTTCCCCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCAcgcgc                                                                    <  1:704517/90‑1 (MQ=25)             tctTTTGCCGCCTGGGCGCTGCGACTGGCAAGATTACGCACTTCACCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCAcgcgcg                                                                   >  1:599245/1‑90 (MQ=255)                                 gCGACTGGCAAGATTACGCACTTCACCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAg                                               >  2:330382/1‑90 (MQ=255)                                     cTGGCAAGATTCCCCCCTTCCCCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGcgcg                                           <  1:101137/90‑1 (MQ=255)                                     cTGGCAAGATTACGCACTTCCCCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGcgcg                                           <  2:617273/90‑1 (MQ=255)                                      tGGCAAGTTTCCGCACTTCCCCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGcgcgg                                          <  1:261486/90‑2 (MQ=37)                                       ggCAAGATTACGCACTTCACCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGCGCGAg                                         <  2:633712/90‑1 (MQ=255)                                       ggCAAGATTACGCACTCCCCCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGCGCGAg                                         <  1:688533/90‑1 (MQ=37)                                               tACGCACTTCCCCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGCGCGAGGATATTAg                                 <  2:488799/90‑1 (MQ=255)                                                 cGCACTTCACCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGCGCGAGGATATTAGTc                               >  1:461997/1‑90 (MQ=255)                                                      ttCACCCGCCACCACGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGCGCGAGGATATTAGTCTGGaa                          >  2:68504/1‑90 (MQ=255)                                                                accacGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGCGCGAGGATATTAGTCTGGAAGGCAATACCg                <  1:311516/90‑1 (MQ=255)                                                                 ccacGGCAAAACCACGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGCGCG‑GGATATTAGTCTGGAAGGCAATACCGTc              >  1:632382/1‑90 (MQ=37)                                                                              aCGGCCCTGGTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGCGCGAGGATATTAGTCTGGAAGGCAATACCGTCGATAACGCTGAt  >  1:236620/1‑90 (MQ=255)                                                                                       |                                                                                 AGGGCTTTGATCTCTTTTGCCGCCTGGGCGCTGCGACTGGCAAGATTACGCACTTCACCCGCCACCACGGCAAAACCACGGCCCTGTTCACCCGCACGCGCGGCTTCAACCGCGGCATTCAGCGCGAGGATATTAGTCTGGAAGGCAATACCGTCGATAACGCTGAT  >  NZ_CP009273/1965696‑1965862

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑