Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP009273	3,466,500	G→A	T125I (ACC→ATC)	fusA ←	protein chain elongation factor EF‑G, GTP‑binding

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	3,466,500	0	G	A	100.0%	169.9 / NA	47	T125I (ACC→ATC)	fusA	protein chain elongation factor EF‑G, GTP‑binding
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (22/25);  total (22/25)

CAGCGGAACCGGGTTCGCGCCCAGACGGGTTTTGATCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGGTTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGGTGTCGATGATGTTGATGCGATGCG  >  CP009273/3466367‑3466632                                                                                                                                      |                                                                                                                                     cAGCGGAACCGGGTTCGCGCCCAGACGGGTTTTGATCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCa                                                                                                                                 >  1:593584/1‑139 (MQ=255)              ttCGCGCCCAGACGGGTTTTGATCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGa                                                                                                                     >  1:736315/1‑138 (MQ=255)                cgcgCCCAGACGGGTTTTGATCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAac                                                                                                                   >  1:699408/1‑138 (MQ=255)                   gcCCAGACGGGTTTTGATCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAAcacc                                                                                                                <  1:1349396/138‑1 (MQ=255)                             gTTTTGATCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGaa                                                                                                                    <  1:1727441/124‑1 (MQ=255)                             gTTTTGATCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTgcg                                                                                                      <  1:2017702/138‑1 (MQ=255)                              ttttGATCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTgcgc                                                                                                     <  1:29686/138‑1 (MQ=255)                              ttttGATCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTgcgc                                                                                                     <  1:785818/138‑1 (MQ=255)                                    tCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAAc                                                                                              <  1:889399/139‑1 (MQ=255)                                       ggTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCaaa                                                                                                          >  1:303085/1‑123 (MQ=255)                                       ggTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCAt                                                                                           >  1:1782518/1‑139 (MQ=255)                                        gTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCaa                                                                                                           <  1:1614349/122‑1 (MQ=255)                                        gTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTg                                                                                                        <  1:988590/125‑1 (MQ=255)                                              aacTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCa                                                                                    <  1:2010771/139‑1 (MQ=255)                                                 tttCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCgg                                                                                                                         <  1:807238/99‑1 (MQ=255)                                                  ttCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTa                                                                                                 >  1:189854/1‑122 (MQ=255)                                                  ttCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAAc                                                                                              >  1:2412110/1‑125 (MQ=255)                                                         aGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGaa                                                                          <  1:358230/138‑1 (MQ=255)                                                         aGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGaa                                                                          <  1:535176/138‑1 (MQ=255)                                                           ttCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAAcacca                                                                                                               >  1:2231050/1‑99 (MQ=255)                                                             cGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGa                                                                                                                               >  1:2257021/1‑81 (MQ=255)                                                              gCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCa                                                                    <  1:2123411/139‑1 (MQ=255)                                                                aCCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATg                                                                  <  1:1011775/139‑1 (MQ=255)                                                                  ccATGCGGTCCATTTTGTTAACGAACGCAATGCGCGCATCTTTATCTTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGa                                                                <  1:2449011/139‑1 (MQ=255)                                                                         gTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCt                                                         >  1:1969279/1‑139 (MQ=255)                                                                              ttttGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGa                                                                                                                               >  1:2441645/1‑64 (MQ=255)                                                                              ttttGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTc                                                    >  1:1345711/1‑139 (MQ=255)                                                                                ttGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGa                                                  <  1:677370/139‑1 (MQ=255)                                                                                          acgCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGaa                                                                          <  1:1717159/105‑1 (MQ=255)                                                                                           cgCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCa                                       >  1:1287718/1‑139 (MQ=255)                                                                                                   gcgGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGccc                               <  1:2710724/139‑1 (MQ=255)                                                                                                    cgGAACTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGa                                                                >  1:292790/1‑105 (MQ=255)                                                                                                        aCTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCgggg                          <  1:949276/139‑1 (MQ=255)                                                                                                         cTTTATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGgt                         <  1:2768644/139‑1 (MQ=255)                                                                                                          tttATATTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGa                                                                <  1:303161/99‑1 (MQ=255)                                                                                                            tataTTTGTTTGCCTGACGCCATACGATTTCAGACTGCGGCTGAac                                                                                                                   <  1:1662230/46‑1 (MQ=255)                                                                                                                    tttgCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACt                                                      >  1:1727517/1‑99 (MQ=255)                                                                                                                    tttgCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGGTGTCGATGATGt              >  1:2687002/1‑139 (MQ=255)                                                                                                                      tgCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACt                                                                                                         >  1:237812/1‑46 (MQ=255)                                                                                                                      tgCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGGTGTCGATGATGTTg            >  1:2219514/1‑139 (MQ=255)                                                                                                                      tgCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGGTGTCGATGATGTTg            >  1:1373991/1‑139 (MQ=255)                                                                                                                      tgCCTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGGGGTCGATGATGTTg            >  1:2114605/1‑139 (MQ=255)                                                                                                                        ccTGACGCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCgggg                          <  1:2476637/123‑1 (MQ=255)                                                                                                                              gCCATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGGTGTCGATGATGTTgatgcgatg    <  1:545130/139‑1 (MQ=255)                                                                                                                                cATACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGGTGTCGATGATGTTGatgcgatgcg  <  1:890481/139‑1 (MQ=255)                                                                                                                                  tACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGGTGTCgatgat                >  1:1053216/1‑123 (MQ=255)                                                                                                                                  tACGATTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGGTGTCGATGATGTTGatgcgatgcg  >  1:2314167/1‑137 (MQ=255)                                                                                                                                      |                                                                                                                                     CAGCGGAACCGGGTTCGCGCCCAGACGGGTTTTGATCTGGTTAACAACTTTCAGGAAGTTCGCACCCATGCGGTCCATTTTGTTAACGAACGCAATGCGCGGAACTTTATATTTGTTTGCCTGACGCCATACGGTTTCAGACTGCGGCTGAACACCACCAACTGCGCAGTAAACCATTACCGCACCATCGAGAACACGCATGGAACGTTCTACTTCGATTGTGAAGTCAACGTGCCCCGGGGTGTCGATGATGTTGATGCGATGCG  >  CP009273/3466367‑3466632

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑