Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_002947	499,203	A→G	intergenic (+47/‑249)	uhpA → / → PP_0411	two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	499,203	0	A	G	100.0%	194.6 / NA	57	intergenic (+47/‑249)	uhpA/PP_0411	two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (26/31);  total (26/31)

AAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑AGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACAAAT  >  NC_002947/499058‑499348                                                                                                                                                   |                                                                                                                                                  aaGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGc                                                                                                                                                <  4:176084/149‑1 (MQ=255)  aGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGc                                                                                                                                                >  4:186233/1‑148 (MQ=255)  aGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCa                                                                                                                                               >  4:97076/1‑149 (MQ=255)           gCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCcgctc                                                                                                                                      <  8:318295/149‑3 (MQ=255)            cACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGaa                                                                                                                                     >  6:405205/1‑149 (MQ=255)                cacaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACggg                                                                                                                                 <  2:314876/149‑1 (MQ=255)                 acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGggc                                                                                                                                <  5:321410/149‑1 (MQ=255)                   aaGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGggcct                                                                                                                              <  2:320800/149‑1 (MQ=255)                    aGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGggcctg                                                                                                                             <  7:90211/149‑1 (MQ=255)                             tGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGAGTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGa                                                                                                                    >  1:62568/1‑149 (MQ=255)                                tGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCCCGAACGGGCCTGGCCTGCTGAtc                                                                                                                  >  7:249247/1‑148 (MQ=255)                                  cAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCctgc                                                                                                                       >  3:283958/1‑141 (MQ=255)                                  cAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCctgc                                                                                                                       <  4:283958/141‑1 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCcgctccc                                                                                                                                    >  6:55283/1‑122 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCcgctccc                                                                                                                                    <  5:55283/126‑5 (MQ=255)                                           aaaGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGa                                                                                                       <  2:7296/148‑1 (MQ=255)                                              gTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCg                                                                                                   <  3:97076/149‑1 (MQ=255)                                                 aaCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGGCAGCCCCCGGACCGGGCCGGGCC‑GCGGGTATATATGGCTGTGCCGGcc                                                                                                >  3:292638/1‑149 (MQ=255)                                                 aaCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                                 <  4:216371/148‑1 (MQ=255)                                                          tcGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGAGCCATACCGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTcgcg                                                                                        <  2:331407/147‑1 (MQ=255)                                                          gctgcgatGGTTAAGTACGCGATGTAGCACATGATGATCTTATTGCTACATACGTGTGCCCGAAACTTGCCTAAGACTATGTGTGAGC‑GGTCATGCCCGCGAACGGGCCTGTCCTGGTGATCTCTATGGCTGAGCCGGCCTGTTCGCgg                                                                                       <  8:299291/142‑1 (MQ=255)                                                          gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTcgc                                                                                         <  2:62568/147‑1 (MQ=255)                                                          gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                       <  3:113953/149‑1 (MQ=255)                                                            ggAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTa                                                                                                              >  6:228558/1‑124 (MQ=255)                                                            ggAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTa                                                                                                              <  5:228558/124‑1 (MQ=255)                                                                   gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGc                                                                                     <  4:125015/142‑1 (MQ=255)                                                                   gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGc                                                                                     >  3:125015/1‑142 (MQ=255)                                                                    tGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATTCCCCCGCACGGGCCAGGCCTGCTGATCTCTATTGCTGAGGCCGCCTCTTAGCGGGCCTGccccc                                                                             >  3:303935/1‑147 (MQ=255)                                                                         tACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATgg                                                                                                           <  4:328619/114‑1 (MQ=255)                                                                         tACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATgg                                                                                                           >  3:328619/1‑114 (MQ=255)                                                                         tACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGGGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCAATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCca                                                                        <  5:404195/149‑1 (MQ=255)                                                                            gCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACCGGCCTGGCCTGCTGATATCTATGGGTGAGCCCGCCTATTAGCGGGCATTCCCGCTCCcacac                                                                     >  5:145798/1‑148 (MQ=255)                                                                                 ggAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCt                                                                                                         >  3:2372/1‑108 (MQ=255)                                                                                 ggAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCt                                                                                                         <  4:2372/108‑1 (MQ=255)                                                                                       caAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTAATCTCTATGGCTGAGCCGGCCTCTTcgcg                                                                                        <  4:34679/119‑1 (MQ=255)                                                                                       caAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTAATCTCTATGGCTGAGCCGGCCTCTTcgcg                                                                                        >  3:34679/1‑119 (MQ=255)                                                                                          gCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGc                                                                                     <  8:200201/119‑1 (MQ=255)                                                                                          gCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGc                                                                                     >  7:200201/1‑119 (MQ=255)                                                                                            tgatctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCCTGCCCGCGAACGGGCCAGGGCGGGGGTTGTCTATTGCTGAGCCGGGCGCTTAGCGGGCCTGGCCGCGCCCCCACGGTTGGTGGtttggtc                                                     >  6:215144/1‑144 (MQ=255)                                                                                              atctgatTGCGACATCCGGGTGCCCGAACCTTGCCGACGCCTATGTGGGCGC‑GGGCATGCCCGCGAACGGGCCGGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCg                                                    <  5:308784/148‑1 (MQ=38)                                                                                              atctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCGGAGCCGGCCACTTAGCCGGGATGCCCCCGCCCACAGGTTTAGGGGTTGGCTCg                                                    >  6:308784/1‑148 (MQ=255)                                                                                              atctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCAATCCCGCGCACGGGCCTGGCCTGCTGCTGTGTATTGCTGGGCCGGCCGCTTAGCGGGCATTGCCGCTCCCCCACGGTTAGTGGTTTGGTCg                                                    >  1:221219/1‑148 (MQ=255)                                                                                                  gatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTg                                                                                                        <  6:37410/92‑1 (MQ=255)                                                                                                  gatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTg                                                                                                        >  5:37410/1‑92 (MQ=255)                                                                                                   atTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCg                                                                                                   <  7:151481/96‑1 (MQ=255)                                                                                                   atTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCg                                                                                                   >  8:151481/1‑96 (MQ=255)                                                                                                              cGGGTGCCCGAAACTTCCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGGGAAGGGGCCTGGCCTGCTGATCTGTATGGCTGTGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATc                                    <  5:307479/148‑1 (MQ=39)                                                                                                                ggTGCCCTAACTTTGCCGACGCCTTTGTGGGTGC‑GGCAATGCCTGCTAAGGGGCCTGGCGTGCTTATTTCTAGGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCg                                 <  4:303935/149‑1 (MQ=25)                                                                                                                ggTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCCAACGGGCCTGGCCTGCTGATCTCTATGACTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCg                                 >  7:123200/1‑149 (MQ=255)                                                                                                                     ccGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCAAGCCCGCGAACCGGCCGGGCCTGGGGATATCTATTGCTGAGCCGGCCACTTAGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAACGGGAATGCAATACcccccaa                            >  2:124846/1‑146 (MQ=255)                                                                                                                      cGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTcc                                                                          >  7:300533/1‑102 (MQ=255)                                                                                                                      cGAAACTTGCCGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTcc                                                                          <  8:300533/102‑1 (MQ=255)                                                                                                                               ccGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGCCTGGCCGGCTGATCTATATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTAGTGGTTTGCTCGCAAGGGCATTCCAATCACGCCATCCTTGTAGGGc                  >  6:105257/1‑149 (MQ=38)                                                                                                                                cGAAGCCTATGTGGGAGC‑GGGCATGCCCGCGAACGGGGCGGGCCGGCGGATAGCAATTGCTGAGCCGGCCGCGTAGCCGGCATGCCCCCTACCACCGGTTTAGTGGTTGGCGCGCAACGGGCTTGCAATCCCCGCAACCATGTTGGGc                  >  8:91225/1‑148 (MQ=255)                                                                                                                                            gggAGC‑GGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGGGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGCAGGGATCGCCCTacaagg     <  5:405205/149‑3 (MQ=38)                                                                                                                                            gggAGC‑GGGATTGCCCGCGAAGGGGCGTGGCTTGTTTATCTTTTTGGCTGAGCGGGCCTTTTCGGGGGAATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGATCGCCCTacaag      <  6:145798/148‑2 (MQ=255)                                                                                                                                               aGC‑GGGCATGCCCGCTAACGGGCCTGGCCTGCTGATCTCTATGACTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGATCGCCCTacaaggatg  <  8:123200/149‑6 (MQ=38)                                                                                                                                                   |                                                                                                                                                  AAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGC‑AGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACAAAT  >  NC_002947/499058‑499348

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑