Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,353,081	G→A	*58* (TAG→TAA)	ghoT →	toxin of GhoTS toxin‑antitoxin pair, membrane‑lytic protein, stimulator of persister cell formation

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,353,081	0	G	A	100.0%	201.6 / NA	62	*58* (TAG→TAA)	ghoT	toxin of GhoTS toxin‑antitoxin pair, membrane‑lytic protein, stimulator of persister cell formation
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (33/29);  total (33/29)

TGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAGGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCTTCGTTCATTAAAGTGAAATTTATTTCTGTGGG  >  NC_000913/4352946‑4353212                                                                                                                                        |                                                                                                                                    tGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                                  <  1:911982/139‑1 (MQ=255)      tgAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTa                                                                                                                             <  2:204126/139‑1 (MQ=255)             atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                                  >  1:421263/1‑127 (MQ=255)             atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                                  <  2:421263/127‑1 (MQ=255)             atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGc                                                                                                                                 >  2:1484814/1‑128 (MQ=255)             atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGc                                                                                                                                 <  1:1484814/128‑1 (MQ=255)             atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGt                                                                                                                      >  1:1061744/1‑139 (MQ=255)             atCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGt                                                                                                                      >  1:1700984/1‑139 (MQ=255)                          aTCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGtt                                                                                                         >  1:31819/1‑139 (MQ=255)                                   aTCTCACTTGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGaaa                                                                                                >  2:1135746/1‑139 (MQ=255)                                     ctcACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACg                                                                                              <  2:1061744/139‑1 (MQ=255)                                          aTGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                                  <  1:492364/98‑1 (MQ=255)                                          aTGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                                  >  2:492364/1‑98 (MQ=255)                                                  acacATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGAccc                                                                                                                <  2:1370525/108‑1 (MQ=255)                                                  acacATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGAccc                                                                                                                >  1:1370525/1‑108 (MQ=255)                                                    acaTATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCa                                                                               >  2:92274/1‑139 (MQ=255)                                                      atatTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGt                                                                                                          <  2:613772/110‑1 (MQ=255)                                                      atatTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGt                                                                                                          >  1:613772/1‑110 (MQ=255)                                                        atTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAAc                                                                           >  1:654831/1‑139 (MQ=255)                                                        atTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAAc                                                                           >  2:1552178/1‑139 (MQ=255)                                                         ttCGTTTACTTAGTGCATTTCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCCCTCTTTTAAGAGCTGTAGTTGAGTgg                                                                                                                    <  1:1067047/97‑1 (MQ=255)                                                         ttCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCATTGAGTCTGCCTGTGGCATTACTTTTTTCCCTCTTTTAAGAGCTGTAGTTGAGTgg                                                                                                                    >  2:1067047/1‑97 (MQ=255)                                                           cGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTgg                                                                        <  1:1135746/139‑1 (MQ=255)                                                                    aGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTgg                                                                                                                    <  2:817085/86‑1 (MQ=255)                                                                    aGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTgg                                                                                                                    >  1:817085/1‑86 (MQ=255)                                                                    aGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGa                                                               >  2:1091914/1‑139 (MQ=255)                                                                     gTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGaa                                                              <  1:1552178/139‑1 (MQ=255)                                                                      tGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                                  <  1:1712074/70‑1 (MQ=255)                                                                      tGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                                  >  2:1712074/1‑70 (MQ=255)                                                                           tCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGa                                                        >  1:1505359/1‑139 (MQ=255)                                                                           tCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGa                                                        >  2:112458/1‑139 (MQ=255)                                                                           tCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGa                                                        >  2:942319/1‑139 (MQ=255)                                                                                gTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGt                                                                                                                      >  2:1418719/1‑72 (MQ=255)                                                                                gTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGt                                                                                                                      <  1:1418719/72‑1 (MQ=255)                                                                                gTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTa                                                                                                        >  1:1355540/1‑86 (MQ=255)                                                                                gTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTa                                                                                                        <  2:1355540/86‑1 (MQ=255)                                                                                  cGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGc                                                 <  1:942319/139‑1 (MQ=255)                                                                                   ggAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCa                                                <  2:1700984/139‑1 (MQ=255)                                                                                     aaTAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGAc                                                                                                                  >  1:932522/1‑71 (MQ=255)                                                                                     aaTAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGAc                                                                                                                  <  2:932522/71‑1 (MQ=255)                                                                                          ccTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCt                                         <  1:112458/139‑1 (MQ=255)                                                                                            tGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGa                                       <  2:31819/139‑1 (MQ=255)                                                                                            tGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGa                                       <  2:1505359/139‑1 (MQ=255)                                                                                            tGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGa                                       <  2:654831/139‑1 (MQ=255)                                                                                              gCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACt                                     >  1:347289/1‑139 (MQ=255)                                                                                               ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                                  >  1:309449/1‑45 (MQ=255)                                                                                               ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAagag                                                                                                                                  <  2:309449/45‑1 (MQ=255)                                                                                               ccAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTg                                    >  2:1042873/1‑139 (MQ=255)                                                                                                 aaTGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCt                                  <  1:1091914/139‑1 (MQ=255)                                                                                                   tGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGt                                                                                                          >  2:1600899/1‑65 (MQ=255)                                                                                                   tGACTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGt                                                                                                          <  1:1600899/65‑1 (MQ=255)                                                                                                            cTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGtctctc                                                                                   >  2:1013451/1‑79 (MQ=255)                                                                                                            cTGTGGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGtctctc                                                                                   <  1:1013451/79‑1 (MQ=255)                                                                                                               tgGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACg                                                                                              >  2:1619365/1‑65 (MQ=255)                                                                                                               tgGCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACg                                                                                              <  1:1619365/65‑1 (MQ=255)                                                                                                                ggCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAg                                                                                           <  2:373823/67‑1 (MQ=255)                                                                                                                ggCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAg                                                                                           >  1:373823/1‑67 (MQ=255)                                                                                                                ggCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCTTCGTTCATTAAAGTg                   <  1:92274/139‑1 (MQ=255)                                                                                                                 gCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGAc                                                                                                                  >  2:1479675/1‑43 (MQ=255)                                                                                                                 gCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGAc                                                                                                                  <  1:1479675/43‑1 (MQ=255)                                                                                                                 gCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTTGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGt                                              <  1:1028135/111‑1 (MQ=255)                                                                                                                 gCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAGACTGGATTTGCGGAACGATGAACGAAGc                                                 <  1:1208872/108‑1 (MQ=255)                                                                                                                 gCATTACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGc                                                 >  2:1208872/1‑108 (MQ=255)                                                                                                                 gCATTACTTTTTTCTCTCTTTTAAGAGCTGTACTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGt                                              >  2:1028135/1‑111 (MQ=255)                                                                                                                     tACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCt                                  <  2:196646/119‑1 (MQ=255)                                                                                                                     tACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCt                                  >  1:196646/1‑119 (MQ=255)                                                                                                                     tACTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCTTCGTTCATTAAAGTGAAatt              >  2:1027151/1‑139 (MQ=255)                                                                                                                      aCTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGtct                                                                                      <  2:232339/66‑1 (MQ=255)                                                                                                                      aCTTTTTTCTCTCTTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGtct                                                                                      >  1:232339/1‑66 (MQ=255)                                                                                                                                 tctTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCTTCGTTCATTAAAGTGAAATTTATTTCTGTggg  >  1:678584/1‑139 (MQ=255)                                                                                                                                 tctTTTAAGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCTTCGTTCATTAAAGTGAAATTTATTTCTGTggg  >  2:7525/1‑139 (MQ=255)                                                                                                                                        |                                                                                                                                    TGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCGTTTACTTAGTGCATTCCTGGTCGGAATAACCTGGCCAATGAGTCTGCCTGTGGCATTACTTTTTTCTCTCTTTTAGGAGCTGTAGTTGAGTGGACCCGCTGGTTATCGTGAAACGAAGCGTCTCTCCTCAAAACTGGATTTGCGGAACGATGAACGAAGCAGTCGCCTGACTGCTTCGTTCATTAAAGTGAAATTTATTTCTGTGGG  >  NC_000913/4352946‑4353212

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑