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%	135.4 / NA	35	R375R (CGC→CGT)	rstB	two‑component system sensor histidine kinase RstB
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (16/19);  total (16/19)

CCATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGCCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGACACCAGC  >  NZ_CP009273/1678143‑1678368                                                                                                                         |                                                                                                          ccATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGAt                                                                                         >  1:415511/1‑139 (MQ=255) ccATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACAGTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCggg                                                                                           <  1:531462/137‑1 (MQ=255)            ttGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACcgg                                                                              >  2:448950/1‑139 (MQ=255)                  ccAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTg                                                                        <  2:177536/139‑1 (MQ=255)                                tCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCt                                                                         >  2:152601/1‑124 (MQ=255)                                tCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCt                                                                         <  1:152601/124‑1 (MQ=255)                                          gagCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCa                                                <  1:119240/139‑1 (MQ=255)                                             cGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTg                                                                        >  1:236322/1‑112 (MQ=255)                                             cGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTg                                                                        <  2:236322/112‑1 (MQ=255)                                             cGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCActc                                             >  1:492617/1‑139 (MQ=255)                                                cATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCta                                           >  2:531360/1‑138 (MQ=255)                                                     aTTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCa                                      <  2:565484/138‑1 (MQ=255)                                                          tgAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTc                                                  >  2:543150/1‑121 (MQ=255)                                                          tgAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTc                                                  <  1:543150/121‑1 (MQ=255)                                                          tgAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCa                                                >  2:96118/1‑123 (MQ=255)                                                          tgAGGATGATGGCCCAGGGATGGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCa                                                <  1:96118/123‑1 (MQ=255)                                                           gAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTc                                                  <  1:273113/120‑1 (MQ=255)                                                           gAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTc                                                  >  2:273113/1‑120 (MQ=255)                                                                   tgGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGt                       <  2:197945/139‑1 (MQ=255)                                                                      cccAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATc                                                                                                    <  2:383186/59‑1 (MQ=255)                                                                      cccAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATc                                                                                                    >  1:383186/1‑59 (MQ=255)                                                                               tGCCCCAGAAAACCGCTAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCtat                                          <  2:39737/108‑1 (MQ=255)                                                                               tGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCtat                                          >  1:39737/1‑108 (MQ=255)                                                                                gCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTg                                                                        >  2:132094/1‑77 (MQ=255)                                                                                gCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTg                                                                        <  1:132094/77‑1 (MQ=255)                                                                                gCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTc                                                  <  2:169243/99‑1 (MQ=255)                                                                                gCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTc                                                  >  1:169243/1‑99 (MQ=255)                                                                                gCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATtgt           >  2:367604/1‑138 (MQ=255)                                                                                gCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATtgt           <  1:181642/138‑1 (MQ=255)                                                                                 ccccAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGa         <  2:415511/139‑1 (MQ=255)                                                                                        aaaCCGCGAACATATCTTTGAACCTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGACACCAGc  <  1:448950/139‑1 (MQ=255)                                                                                                               cTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTc                                                  >  2:162614/1‑68 (MQ=255)                                                                                                               cTTTTGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTc                                                  <  1:162614/68‑1 (MQ=255)                                                                                                                 tttGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGt                       >  2:1360/1‑93 (MQ=255)                                                                                                                 tttGTTCGTCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGt                       <  1:1360/93‑1 (MQ=255)                                                                                                                         |                                                                                                          CCATTCAACGGTTGAAACCAGCCTGCTACTGTCGGGGAATAGAGCGACATTAATTGTTGAGGATGATGGCCCAGGGATTGCCCCAGAAAACCGCGAACATATCTTTGAACCTTTTGTTCGCCTCGATCCCAGCCGGGATCGCTCAACCGGCGGCTGCGGGCTGGGGCTGGCAATTGTCCACTCTATAGCACTGGCAATGGGCGGTACGGTTAATTGTGACACCAGC  >  NZ_CP009273/1678143‑1678368

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑