Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,678,263	C→T	R375R (CGC→CGT)	rstB →	two‑component system sensor histidine kinase RstB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,678,263	0	C	T	100.0%	154.0 / NA	40	R375R (CGC→CGT)	rstB	two‑component system sensor histidine kinase RstB
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (21/19);  total (21/19)

ACGCCCTGCGGTACTGCCATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGCCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGACAC  >  NZ_CP009273/1678127‑1678364                                                                                                                                         |                                                                                                      aCGCCCTGCGGTACTGCCATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCt                                                                                                     <  2:589548/139‑1 (MQ=255)         cGGTACTGCCATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATcc                                                                                               >  2:507722/1‑137 (MQ=255)         cGGTACTGCCATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATcc                                                                                               >  1:573527/1‑137 (MQ=255)          ggTACTGCCATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAg                                                                                            <  2:661517/139‑1 (MQ=255)              cTGCCATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCgg                                                                                        <  1:516459/139‑1 (MQ=255)                          ggTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAAcc                                                                            <  2:573527/139‑1 (MQ=255)                            atGAAACCAGCCTGCTACTGTCGGGGAATATAGCGACATTACTTGTTGAGGATGATGGCCCCGTGATTGCCCCAGAAAATTGCGAACATATCTCTGAACCTTTTGCTCGTCTCGTTCCCAGCCGGGATCGCTCAACcgg                                                                          >  2:244032/2‑139 (MQ=255)                                      ccTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTg                                                                    >  1:162379/1‑135 (MQ=255)                                      ccTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTg                                                                    <  2:162379/135‑1 (MQ=255)                                      ccTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCggg                                                                >  1:705940/1‑139 (MQ=255)                                       cTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCgggc                                                               <  1:630673/139‑1 (MQ=255)                                             cTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCgggctggggc                                                         >  2:231725/1‑139 (MQ=255)                                             cTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCgggctgggg                                                          <  2:540830/138‑1 (MQ=255)                                                   gggAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCaa                                                   <  1:445212/139‑1 (MQ=255)                                                    ggAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAAt                                                  >  2:303738/1‑139 (MQ=255)                                                       aTAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGATCGTCTCGATCCCAGCCGGGATCGCGCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGt                                               <  1:244032/139‑1 (MQ=255)                                                          gagCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCa                                            <  1:507722/139‑1 (MQ=255)                                                          gagCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCa                                            <  1:536860/139‑1 (MQ=255)                                                          gagCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCa                                            <  1:303738/139‑1 (MQ=255)                                                          gagCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCa                                            >  2:38201/1‑139 (MQ=255)                                                          gagCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCa                                            <  2:687875/139‑1 (MQ=255)                                                               aCATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCta                                       <  1:411545/139‑1 (MQ=255)                                                                cATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCta                                       >  1:221246/1‑138 (MQ=255)                                                                           gAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCaa                           >  2:640093/1‑139 (MQ=255)                                                                           gAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCaa                           >  2:743316/1‑139 (MQ=255)                                                                           gAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCaa                           >  1:756697/1‑139 (MQ=255)                                                                             ggATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCgggctgggg                                                          <  1:669303/106‑1 (MQ=255)                                                                             ggATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCgggctgggg                                                          >  2:669303/1‑106 (MQ=255)                                                                             ggATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATg                         >  1:19601/1‑139 (MQ=255)                                                                              gatgatGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATgg                        >  2:709027/1‑139 (MQ=255)                                                                                   tgGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTc                                              <  1:591664/112‑1 (MQ=255)                                                                                   tgGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTc                                              >  2:591664/1‑112 (MQ=255)                                                                                   tgGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCgg                    >  1:226946/1‑138 (MQ=255)                                                                                   tgGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGt                   <  1:38201/139‑1 (MQ=255)                                                                                   tgGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGt                   <  2:705940/139‑1 (MQ=255)                                                                                         aGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCa                                            >  2:150810/1‑108 (MQ=255)                                                                                         aGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCa                                            <  1:150810/108‑1 (MQ=255)                                                                                          gggATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGtt             >  1:310753/1‑138 (MQ=255)                                                                                               tGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATtgt       >  2:362725/1‑139 (MQ=255)                                                                                                      gAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGacac  >  2:587055/1‑137 (MQ=255)                                                                                                                                         |                                                                                                      ACGCCCTGCGGTACTGCCATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGCCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGACAC  >  NZ_CP009273/1678127‑1678364

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑