Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,280,272	G→A	A405T (GCA→ACA)	narH →	nitrate reductase subunit beta

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,280,272	0	G	A	100.0%	155.8 / NA	40	A405T (GCA→ACA)	narH	nitrate reductase subunit beta
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (20/20);  total (20/20)

AGTCTGCAGCAGACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGCACAGGAGATGTACCGTTATCTGGCGATTG  >  NZ_CP009273/1280147‑1280407                                                                                                                              |                                                                                                                                        aGTCTGCAGCAGACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTAt                                                                                                                            >  2:42300/1‑139 (MQ=255)   tCTGCAGCAGACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGc                                                                                                                          >  1:584129/1‑139 (MQ=255)        agcagACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGc                                                                                                                      >  2:573314/1‑138 (MQ=255)             aCGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCg                                                                                                                >  2:766397/1‑139 (MQ=255)             aCGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCg                                                                                                                <  1:569300/139‑1 (MQ=255)                                     gCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGaa                                                                                                                                  <  2:277407/97‑1 (MQ=255)                                     gCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGaa                                                                                                                                  >  1:277407/1‑97 (MQ=255)                                     gCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGt                                                                                        >  2:822106/1‑139 (MQ=255)                                     gCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGt                                                                                        >  2:592686/1‑139 (MQ=255)                                             ccAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTa                                                                                <  1:102831/139‑1 (MQ=255)                                             ccAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTa                                                                                <  1:592686/139‑1 (MQ=255)                                                  cGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGtt                                                                           >  2:369017/1‑139 (MQ=255)                                                            cTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTg                                                                 <  1:42300/139‑1 (MQ=255)                                                               cGTATTCCGGTACAGTATATGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGtt                                                                                       >  2:1185437/1‑114 (MQ=255)                                                               cGTATTCCGGTACAGTATATGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGtt                                                                                       <  1:1185437/114‑1 (MQ=255)                                                                   ttCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGa                                                          <  1:369017/139‑1 (MQ=255)                                                                   ttCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGa                                                          <  2:784160/139‑1 (MQ=255)                                                                      cGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCTTCATTACAAACGAGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGGTGGag                                                         >  2:1100916/1‑136 (MQ=255)                                                                              tATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATg                                                                                                                           >  1:1175184/1‑63 (MQ=255)                                                                              tATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATg                                                                                                                           <  2:1175184/63‑1 (MQ=255)                                                                              tATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGt                                                                                                               >  1:1017745/1‑75 (MQ=255)                                                                              tATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGt                                                                                                               <  2:1017745/75‑1 (MQ=255)                                                                              tATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACaaa                                                                                                      >  2:834872/1‑84 (MQ=255)                                                                              tATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACaaa                                                                                                      <  1:834872/84‑1 (MQ=255)                                                                                tCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCt                                              >  2:733163/1‑138 (MQ=255)                                                                                    gCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGAc                                           <  1:291464/137‑1 (MQ=255)                                                                                        aTCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGc                                     >  1:203812/1‑139 (MQ=255)                                                                                        aTCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGc                                     >  2:541865/1‑139 (MQ=255)                                                                                        aTCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGc                                     >  1:589714/1‑139 (MQ=255)                                                                                             ctgACCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGccc                                   <  1:726621/136‑1 (MQ=255)                                                                                                tccgccgGTGATACCAAACCGGTACTGCGCACACTCAAACTTATCCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATCCCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGcac                             <  1:1100916/138‑1 (MQ=255)                                                                                                aCCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGcac                             <  1:733163/139‑1 (MQ=255)                                                                                                aCCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGcac                             <  2:1113820/139‑1 (MQ=255)                                                                                                aCCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGcac                             <  2:584129/139‑1 (MQ=255)                                                                                                aCCGCCGGTGATACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGcac                             <  2:589714/139‑1 (MQ=255)                                                                                                          aTACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTa                                                                                <  2:218226/78‑1 (MQ=255)                                                                                                          aTACCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTa                                                                                >  1:218226/1‑78 (MQ=255)                                                                                                            aCCAAACCGGTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGCACAGGAGATGTAcc                 >  2:1038394/1‑139 (MQ=255)                                                                                                                     gTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTa                                                                                <  1:1093116/67‑1 (MQ=255)                                                                                                                     gTACTGCGCACACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTa                                                                                >  2:1093116/1‑67 (MQ=255)                                                                                                                          gcgcacACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGCACAGGAGATGTACCGTTATCTGGCGAtt   >  2:329949/1‑139 (MQ=255)                                                                                                                           cgcacACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAgg                                <  1:1254277/109‑1 (MQ=255)                                                                                                                           cgcacACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAgg                                >  2:1254277/1‑109 (MQ=255)                                                                                                                           cgcacACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGCACAGGAGATGTACCGTTATCTGGCGATTg  >  2:739732/1‑139 (MQ=255)                                                                                                                           cgcacACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGCACAGGAGATGTACCGTTATCTGGCGATTg  >  2:1090572/1‑139 (MQ=255)                                                                                                                              |                                                                                                                                        AGTCTGCAGCAGACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCCGTGCGCTGGAAGAGGTCGGTCTGACCGAAGCCCAGGCACAGGAGATGTACCGTTATCTGGCGATTG  >  NZ_CP009273/1280147‑1280407

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑