Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP025268	1,218,752	T→C	intergenic (+75/+28)	CXP41_RS06400 → / ← iraM	isocitrate/isopropylmalate family dehydrogenase/anti‑adapter protein IraM

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP025268	1,218,752	0	T	C	100.0%	210.5 / NA	62	intergenic (+75/+28)	CXP41_RS06400/iraM	isocitrate/isopropylmalate family dehydrogenase/anti‑adapter protein IraM
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (17/45);  total (17/45)

ATGGAAGGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTGGAGGACACTCTTGACTGCTTTTGAGTAAACT  >  NZ_CP025268/1218615‑1218887                                                                                                                                          |                                                                                                                                        aTGGAAGGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACTTGTAATCTCTCCATGTGTTAAATATAGAAACGGGCGTATAACACGCCCGTTGATTTATTGATGTGGATATTAGTAATAGcat                                                                                                                                       >  2:6415420/1‑140 (MQ=37)   ggAAGGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCatat                                                                                                                                     <  1:5278056/140‑1 (MQ=255)    gAAGGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATc                                                                                                                                    <  2:5732767/140‑1 (MQ=255)      aGGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGa                                                                                                                                  <  2:7307451/140‑1 (MQ=255)       ggCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAg                                                                                                                                 <  2:4280236/140‑1 (MQ=255)       ggCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAg                                                                                                                                 >  1:8172663/1‑140 (MQ=255)       ggCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAg                                                                                                                                 <  2:8861522/140‑1 (MQ=255)        gcgcTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGc                                                                                                                                <  2:4426574/140‑1 (MQ=255)        gcgcTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGc                                                                                                                                <  1:7265644/140‑1 (MQ=255)        gcgcTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGc                                                                                                                                >  2:9289504/1‑140 (MQ=255)         cgcTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCa                                                                                                                               <  1:10306540/140‑1 (MQ=255)         cgcTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCa                                                                                                                               <  2:5363895/140‑1 (MQ=255)            tAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCatat                                                                                                                            <  1:8945897/140‑1 (MQ=255)                   ctgAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATg                                                                                                                     <  1:6136466/140‑1 (MQ=255)                   ctgAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATg                                                                                                                     <  1:6675830/140‑1 (MQ=255)                   ctgAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATg                                                                                                                     <  2:4906621/140‑1 (MQ=255)                      aaaTGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAg                                                                                                                  <  2:10252699/140‑1 (MQ=255)                      aaaTGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAg                                                                                                                  <  2:8172662/140‑1 (MQ=255)                      aaaTGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAg                                                                                                                  <  2:4857235/140‑1 (MQ=255)                          gTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCa                                                                                                              <  2:6310651/140‑1 (MQ=255)                          gTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCa                                                                                                              <  1:5213006/140‑1 (MQ=255)                          gTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCa                                                                                                              <  1:3823572/140‑1 (MQ=255)                          gTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCa                                                                                                              <  1:5153988/140‑1 (MQ=255)                          gTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCa                                                                                                              <  1:5212703/140‑1 (MQ=255)                               gagTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACt                                                                                                         <  2:7194503/140‑1 (MQ=255)                               gagTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACt                                                                                                         <  2:7194517/140‑1 (MQ=255)                                   ttGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAg                                                                                                     <  2:3697977/140‑1 (MQ=255)                                   ttGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAg                                                                                                     <  2:7663457/140‑1 (MQ=255)                                     ggTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGcc                                                                                                   >  1:5174661/1‑140 (MQ=255)                                         aaGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCata                                                                                               <  2:1634126/140‑1 (MQ=255)                                          aGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCatat                                                                                              >  2:5803967/1‑140 (MQ=255)                                             gATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATggg                                                                                           <  1:1809544/140‑1 (MQ=255)                                                catcGAAAACATGTAATCTCTCCATGTGTTAAATAATGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTAATTGAGCCCATATGGGCat                                                                                        >  1:7970283/1‑140 (MQ=255)                                                       aaCATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTGCTTGAGCCCATATGGGCATATTTTta                                                                                 <  1:2392900/140‑1 (MQ=255)                                                        aCATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTtat                                                                                <  1:8884372/140‑1 (MQ=255)                                                             tAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGc                                                                           <  1:4939521/140‑1 (MQ=255)                                                               aTCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCaa                                                                         <  1:3722907/140‑1 (MQ=255)                                                                  tctcCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACta                                                                      <  1:9289505/140‑1 (MQ=255)                                                                    tcCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACtatt                                                                    >  2:9841448/1‑140 (MQ=255)                                                                    tcCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACtatt                                                                    >  2:6227439/1‑140 (MQ=255)                                                                         gtgtTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTa                                                               <  1:8885679/140‑1 (MQ=255)                                                                           gtTAAATATTGACACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTaaa                                                             <  2:6123727/140‑1 (MQ=255)                                                                            ttAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAAc                                                            >  1:5688443/1‑140 (MQ=255)                                                                                    tGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACatttattt                                                    >  2:9280933/1‑140 (MQ=255)                                                                                             cGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATATCATATCGAGCATATTTATATGAAGCCAATTACTTGAGCCCATATGGGCAAAATTATATAATGAAAATATTATGTAAACATATATATGTTATTTTg                                           >  1:1126551/1‑140 (MQ=255)                                                                                               tataACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCt                                         <  1:5634133/140‑1 (MQ=255)                                                                                               tataACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCt                                         <  1:6746257/140‑1 (MQ=255)                                                                                               tataACACGACCTTTGTTTTATTTTTGTGGATATTATTTTTTGCATATCGAGCATATTTATATGATGAGCTTTAATTGTGCCAATATTTGCATATTTTTTTAATGGATCTATTATGTTAACATTTATTTGTTTTTTTggt                                         <  2:9601871/140‑3 (MQ=255)                                                                                                  aaCACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTtc                                      <  2:10459284/140‑1 (MQ=255)                                                                                                      cGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCt                                  >  2:556964/1‑140 (MQ=255)                                                                                                        cccGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTgg                                >  2:8048399/1‑140 (MQ=255)                                                                                                         ccGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATTTAAACATTTATTTGTTATTTTGCTTTCTCCTgga                               >  2:7221119/1‑140 (MQ=255)                                                                                                          cGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTggag                              >  2:10307647/1‑140 (MQ=255)                                                                                                           gttgttTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTggagg                             <  2:3845743/140‑1 (MQ=255)                                                                                                            ttgttTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTggagga                            >  1:7136672/1‑140 (MQ=255)                                                                                                                     ttatGTGGATATTATTAATAGCATATCGAGCATATTTATATGACGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTGGAGGACACTCTTGa                   <  2:10243219/140‑1 (MQ=255)                                                                                                                      tatGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTGGAGGACACTCTTGAc                  <  2:5179511/140‑1 (MQ=255)                                                                                                                           ggATATTATTAATAGCATATCGAGCATATTTCTATGAAGCCCATTACTTGAGCCCATCTGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTGGAGGACACTCTTGACTGCtt             <  2:6667266/140‑1 (MQ=255)                                                                                                                           ggATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTGGAGGACACTCTTGACTGCtt             <  2:8909245/140‑1 (MQ=255)                                                                                                                                  attaATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTGGAGGACACTCTTGACTGCTTTTGAGTa      <  2:2742878/140‑1 (MQ=255)                                                                                                                                      aTAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTGGAGGACACTCTTGACTGCTTTTGAGTAAACt  >  2:4449394/1‑140 (MQ=255)                                                                                                                                       tAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCat                                                                                                >  1:7807963/1‑45 (MQ=255)                                                                                                                                       tAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCat                                                                                                <  2:7807962/45‑1 (MQ=255)                                                                                                                                          |                                                                                                                                        ATGGAAGGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTGGAGGACACTCTTGACTGCTTTTGAGTAAACT  >  NZ_CP025268/1218615‑1218887

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑