Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,661,508	T→G	T250P (ACC→CCC)	hcaR ←	DNA‑binding transcriptional regulator HcaR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,661,508	0	T	G	100.0%	58.2 / NA	18	T250P (ACC→CCC)	hcaR	DNA‑binding transcriptional regulator HcaR
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (9/9);  total (9/9)

CATCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGTATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCACCAGAATATT  >  NZ_CP009273/2661428‑2661586                                                                                 |                                                                               cATCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAatt                                                                       >  1:245676/1‑90 (MQ=255)   tctcCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAattat                                                                     <  1:372312/90‑1 (MQ=255)    ctcCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAattatt                                                                    <  2:245676/90‑1 (MQ=255)      ccccTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCa                                                                  >  1:772745/1‑90 (MQ=255)         cTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCatat                                                               <  1:393916/90‑1 (MQ=255)              ttcCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCg                                                          <  2:305379/90‑1 (MQ=255)                 cACGCCATCAGTAAAGCAATGAAAGGCACATTTCCGGCAATGGGACGACAAACAACCTATCCGGGAGTAATATTATTCTCATAACCGGGt                                                       >  2:82349/1‑90 (MQ=255)                       aTCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCaaa                                                 >  2:294142/1‑90 (MQ=255)                                 cAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCa                                       <  2:696858/90‑1 (MQ=255)                                   aTGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGc                                     >  1:97315/1‑90 (MQ=255)                                   aTGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGc                                     >  2:99111/1‑90 (MQ=255)                                   aTGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAA‑CGGGTATCAAAGTGACGCCCAGcc                                    >  1:660617/1‑90 (MQ=255)                                     ggAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGccc                                   >  1:357956/1‑90 (MQ=255)                                             caTTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGccct                           >  1:308162/1‑89 (MQ=255)                                               tttCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCccacc                         <  2:440152/90‑1 (MQ=255)                                                           ggACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTc             <  1:592235/90‑1 (MQ=255)                                                              cGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCAcc          <  1:53448/90‑1 (MQ=255)                                                                      aacCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCACCAGAATAtt  <  2:539456/90‑1 (MQ=255)                                                                                 |                                                                               CATCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGTATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCACCAGAATATT  >  NZ_CP009273/2661428‑2661586

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑