Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	50,280	T→C	F153S (TTT→TCT)	folA →	type 3 dihydrofolate reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	50,280	0	T	C	100.0%	316.7 / NA	83	F153S (TTT→TCT)	folA	type 3 dihydrofolate reductase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (38/45);  total (38/45)

TTTCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTTTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTCCTA  >  NZ_CP009273/50194‑50366                                                                                       |                                                                                        tttCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTga                                                                                      <  1:1183548/90‑1 (MQ=255) tttCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTga                                                                                      <  1:2476227/90‑1 (MQ=255) tttCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTga                                                                                      <  2:1690831/90‑1 (MQ=255) tttCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTga                                                                                      <  2:1649244/90‑1 (MQ=255) tttCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTga                                                                                      <  2:147057/90‑1 (MQ=255) tttCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTga                                                                                      <  1:2985653/90‑1 (MQ=255)       ggATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCt                                                                                >  2:502911/1‑90 (MQ=255)       ggATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCt                                                                                >  2:525515/1‑90 (MQ=255)       ggATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCt                                                                                >  1:2278205/1‑90 (MQ=255)             cGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAgcg                                                                          >  2:807819/1‑90 (MQ=255)             cGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAgcg                                                                          <  1:2303960/90‑1 (MQ=255)                  cGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGcggcggc                                                                     >  2:2547490/1‑89 (MQ=255)                  cGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGt                                                                     <  2:1242173/90‑1 (MQ=255)                   ggATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTa                                                                    >  2:1274246/1‑90 (MQ=255)                    gATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTaa                                                                   <  2:1840076/90‑1 (MQ=255)                       gACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAAttt                                                                <  1:1731878/90‑1 (MQ=255)                       gACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAAttt                                                                <  1:2470606/90‑1 (MQ=255)                       gACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAAttt                                                                <  1:440067/90‑1 (MQ=255)                           gggAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTga                                                                                      >  1:2308894/1‑64 (MQ=255)                           gggAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTga                                                                                      <  2:2308894/64‑1 (MQ=255)                           gggAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAAttt                                                                >  1:2266473/1‑86 (MQ=255)                           gggAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAAttt                                                                <  2:2266473/86‑1 (MQ=255)                           gggAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTTta                                                            >  2:584579/1‑90 (MQ=255)                           gggAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGGAAatttttt                                                            >  1:368325/1‑87 (MQ=255)                              aaTCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTTTA‑TAg                                                        >  1:2938752/1‑90 (MQ=255)                                  ggTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGGAAATTTTTA‑TAGAAtt                                                    >  1:828666/1‑90 (MQ=255)                                   gTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAAttt                                                   >  2:1978221/1‑90 (MQ=255)                                      ttCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACg                                                >  2:410225/1‑90 (MQ=255)                                      ttCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAAATTTGTA‑TAAAAATTACg                                                >  2:2092032/1‑90 (MQ=255)                                      ttCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGGAAGTTTTTA‑TAGAATTTatg                                                >  1:2280482/1‑88 (MQ=255)                                       tCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTTTA‑TAGAATTTACgg                                               >  2:2035798/1‑90 (MQ=255)                                        cAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGGAATTTTGTA‑TTGAATTTTCGGc                                              >  1:2065263/1‑90 (MQ=255)                                          gCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGGAATTTTTTA‑TAGAATTTTCGGCTa                                            >  1:188955/1‑90 (MQ=255)                                             aaTTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAacg                                         >  2:200814/1‑90 (MQ=255)                                                       tGCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAAAATTTACCGCTAACGCCGGATGCGa                               >  2:599636/1‑90 (MQ=255)                                                        gCTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTTTA‑TAGAATTTACGGCTAGCGCCCGATGCGag                              >  2:2664545/1‑89 (MQ=255)                                                         cTGATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACg                             >  2:99833/1‑90 (MQ=255)                                                           gATGCGCAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGcc                           <  1:1978221/90‑1 (MQ=255)                                                           gATGCGCAGAACTCTCACAGCCATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGcc                           <  1:415406/90‑1 (MQ=255)                                                               cgcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTc                       <  2:723708/90‑1 (MQ=255)                                                               cgcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTc                       <  2:1655503/90‑1 (MQ=255)                                                                gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTTTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTcg                      >  2:1919213/1‑90 (MQ=255)                                                                gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTTTA‑TAGAATTTACGGCTAACGCCCGGTGCGGCGCCGGGcg                      >  1:244539/1‑90 (MQ=255)                                                                gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTTTA‑TAGAATTTACGGCCAGCCCCGGATGCGACGCCGGGcg                      >  2:1679839/1‑90 (MQ=255)                                                                gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAg                                           >  2:333882/1‑69 (MQ=255)                                                                gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAg                                           <  1:333882/69‑1 (MQ=255)                                                                gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGGcg                      >  2:866876/1‑90 (MQ=255)                                                                gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGGAATTTTTTT‑TAGAATTTACCGCTAAGGCCCGGGGGGACGCCGGGcg                      >  1:1710454/1‑90 (MQ=255)                                                                gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGGAATTTTTTATTAAAATTAGCGGC‑ACCGCCGGCTGCGGCGCCCGTcc                      >  1:2574876/1‑89 (MQ=255)                                                                gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGGAATTTTGTA‑TAGAATTTTCGGCTAACGCCGGGTGGGGCGCCGGGcg                      >  1:358686/1‑90 (MQ=255)                                                                gcAGAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGGAATTTTGTA‑TAGAATTTACGGCTAACGCCCGGTGCGACGCCGGGcg                      >  1:643560/1‑90 (MQ=255)                                                                   gAACTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGt                   <  2:1643434/90‑1 (MQ=255)                                                                    aaCTCTCACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTc                  <  2:2278205/90‑1 (MQ=255)                                                                        ctcACAGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTTTA‑TAGAATTTACGGCTAACGCCCGGTGGGACGCCGGGCGCGTCtttt              >  1:145099/1‑88 (MQ=255)                                                                             aGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGc         <  1:43093/90‑1 (MQ=255)                                                                             aGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGc         >  2:687171/1‑90 (MQ=255)                                                                             aGCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGc         <  1:1024091/90‑1 (MQ=255)                                                                              gCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGcc        <  2:2280482/90‑1 (MQ=255)                                                                              gCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGcc        <  2:2982941/90‑1 (MQ=255)                                                                              gCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGcc        <  1:853059/90‑1 (MQ=255)                                                                              gCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGcc        <  2:1647544/90‑1 (MQ=255)                                                                              gCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGcc        <  1:558139/90‑1 (MQ=255)                                                                              gCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGcc        <  1:99833/90‑1 (MQ=255)                                                                              gCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGcc        <  2:1138342/90‑1 (MQ=255)                                                                              gCTATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTACCCGGcc        <  1:2414093/90‑1 (MQ=255)                                                                                tATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGGTGCGACGCCGGGCGCGTCTTATCCGGCCtt      >  2:1874700/1‑90 (MQ=39)                                                                                tATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTc                       <  1:2897644/73‑1 (MQ=255)                                                                                tATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTc                       >  2:2897644/1‑73 (MQ=255)                                                                                tATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCtt      <  1:1079504/90‑1 (MQ=255)                                                                                tATTGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCtt      >  2:940290/1‑90 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTTTA‑TAGAATTTACGGCTAGCGCCGGGGGCGACGCCGGGCGCGGCTTTTTCCGCCTTcc    >  1:597815/1‑90 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  2:2938752/90‑1 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  1:502911/90‑1 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  1:63351/90‑1 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  1:2767443/90‑1 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  1:2698133/90‑1 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  1:815646/90‑1 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  1:1674952/90‑1 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  1:1257929/90‑1 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  1:114300/90‑1 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  2:2353853/90‑1 (MQ=255)                                                                                  ttGCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTcc    <  2:1441349/90‑1 (MQ=255)                                                                                    gCTCTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTCCta  <  1:2138231/90‑1 (MQ=255)                                                                                       |                                                                                        TTTCCCGGATTACGAGCCGGATGACTGGGAATCGGTATTCAGCGAATTCCACGATGCTGATGCGCAGAACTCTCACAGCTATTGCTTTGAGATTCTGGAGCGGCGGTAATTTTGTA‑TAGAATTTACGGCTAGCGCCGGATGCGACGCCGGTCGCGTCTTATCCGGCCTTCCTA  >  NZ_CP009273/50194‑50366

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑