Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,649,476	A→G	intergenic (‑78/+128)	rspA ← / ← ynfA	starvation‑sensing protein RspA/YnfA family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,649,476	0	A	G	100.0%	24.4 / NA	8	intergenic (‑78/+128)	rspA/ynfA	starvation‑sensing protein RspA/YnfA family protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (4/4);  total (4/4)

CCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCAC‑AAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAG  >  NZ_CP009273/1649407‑1649560                                                                      |                                                                                      ccTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATcac‑a                                                                  <  2:296136/90‑1 (MQ=255)        tCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCAC‑AAAAAAAg                                                           >  1:281767/1‑90 (MQ=255)            ttGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCAC‑AAAAAAAGGCGt                                                       <  1:92805/90‑1 (MQ=255)                             aTCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCAC‑AAAAAAAGGCGTATATTTGCGCTGTGAAt                                      <  1:119365/90‑1 (MQ=255)                                         gAGCTACTACCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCAC‑AAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAg                          >  1:141445/1‑90 (MQ=255)                                                tacCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACaa                             <  1:313216/81‑1 (MQ=255)                                                tacCATACAAGTATAAAGATCGGAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACaa                             >  2:313216/1‑81 (MQ=255)                                                                 gATCGGAAAAAGCCGGAGTGATCAC‑AAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAg  >  2:331572/1‑90 (MQ=255)                                                                      |                                                                                      CCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCAC‑AAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAG  >  NZ_CP009273/1649407‑1649560

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑