Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,235,908	T→G	A540A (GCA→GCC)	cvrA ←	potassium/proton antiporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,235,908	0	T	G	100.0%	72.6 / NA	22	A540A (GCA→GCC)	cvrA	potassium/proton antiporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (13/9);  total (13/9)

CATTAAATTTAAGATTCAGCTTCCTCTTCAGCCACCCGTACGCCAATCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGTGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGT  >  NZ_CP009273/1235783‑1236035                                                                                                                              |                                                                                                                                cATTAAATTTAAGATTCAGCTTCCTCTTCAGCCACCCGTACGCCAATCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTaac                                                                                                                     <  2:44965/138‑1 (MQ=255)               ttCAGCTTCCTCTTCAGCCACCCGTACGCCAATCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAAtt                                                                                                      <  2:364508/139‑1 (MQ=255)                                ccACCCGTACGCCAATCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTtgctg                                                                                     >  2:21037/1‑139 (MQ=255)                                   cccGTACGCCAATCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTgatgct                                                                                   >  1:354846/1‑138 (MQ=255)                                            cAATCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTaac                                                                                                                     <  1:60416/95‑1 (MQ=255)                                            cAATCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTaac                                                                                                                     >  2:60416/1‑95 (MQ=255)                                              aTCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGCTAtt                                                                       >  2:434890/1‑139 (MQ=255)                                              aTCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATAtt                                                                       >  1:29338/1‑139 (MQ=255)                                              aTCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATAtt                                                                       >  1:50632/1‑139 (MQ=255)                                              aTCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATAtt                                                                       >  2:221795/1‑139 (MQ=255)                                                   cAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATtct                                                                     <  1:125912/136‑1 (MQ=255)                                                      cacTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTGCCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCg                                                               <  1:195721/139‑1 (MQ=255)                                                             ttATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCa                                                        <  2:337444/139‑1 (MQ=255)                                                                     tttctCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGa                                                                                                           >  2:169683/1‑80 (MQ=255)                                                                     tttctCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGa                                                                                                           <  1:169683/80‑1 (MQ=255)                                                                     tttctCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCata                                                 >  2:160335/1‑138 (MQ=255)                                                                                ccGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCaa                                      >  1:431874/1‑138 (MQ=255)                                                                                             cccGGCAAACTCTACCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTg                        >  1:179278/1‑139 (MQ=255)                                                                                                    aaCTCTCCCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTgg                 <  1:365929/139‑1 (MQ=255)                                                                                                          aCCTGGTCACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTc             >  1:252227/1‑137 (MQ=255)                                                                                                                 cACCGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATg      >  2:253583/1‑137 (MQ=255)                                                                                                                   ccGACAACCGGGGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGt  <  1:21037/139‑1 (MQ=255)                                                                                                                              |                                                                                                                                CATTAAATTTAAGATTCAGCTTCCTCTTCAGCCACCCGTACGCCAATCTTCAACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGTGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGT  >  NZ_CP009273/1235783‑1236035

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑