Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 2,169,671 T→G 7.8% intergenic (+60/+22) yegS → / ← gatR phosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,169,6710TG 7.8% 149.8 / 3.8 52intergenic (+60/+22)yegS/gatRphosphatidylglycerol kinase, metal‑dependent/pseudogene, repressor for gat operon; interrupted by IS3; split galactitol utilization operon repressor, fragment 2; split galactitol utilization operon repressor, interrupted
Reads supporting (aligned to +/- strand):  ref base T (28/19);  new base G (2/2);  total (30/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.78e-01

TGAGTGGGCAAAATTTTCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGATTAAAACCGCGACG  >  NC_000913/2169529‑2169815
                                                                                                                                              |                                                                                                                                                
tGAGTGGGCAAAATTTTCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGACCTAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCg                                                                                                                                            >  1:544468/1‑149 (MQ=255)
 gAGTGGGCAAAATTTTCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCgg                                                                                                                                           <  1:683958/149‑1 (MQ=255)
  aGTGGGCAAAATTTTCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGc                                                                                                                                          <  1:216163/149‑1 (MQ=255)
      ggCAAAATTTTCATATTGAAATACTTCCGACAGCGTTGCGTTGTCGATTACCAGCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTATCTTGAACCAGGGAGAATCCGTAATGCCGGATAAGGTGTTTTCACCGCATCCGGCAtta                                                                                                                                      <  2:590368/149‑3 (MQ=255)
      cgCAAAATTTTCAGATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGGCCACTGCTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATAAGGTGTTTACACCGCATCCGGCAtta                                                                                                                                      <  2:20750/148‑3 (MQ=38)
         aaacTTCTCATCTTGAAATACTTCCGCCAGCGTTGCGTGGGCGAGTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCCTAccaa                                                                                                                                   >  2:469409/1‑146 (MQ=255)
         aaaaTTTTCATATTGAATTATTTCCGGCAGCGTGGCGTGGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGa                                                                                                                                   >  2:470116/1‑149 (MQ=255)
          aaaTTTTCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGaa                                                                                                                                  <  1:21218/149‑1 (MQ=255)
             ttttCATATTGAAATCCTTCCGGCCGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACaa                                                                                                                               <  2:40355/149‑1 (MQ=255)
             ttttCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACaa                                                                                                                               <  2:626511/149‑1 (MQ=255)
                    atTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTaca                                                                                                                        <  2:155105/149‑1 (MQ=255)
                    atTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTaca                                                                                                                        >  1:514530/1‑149 (MQ=255)
                      tGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACAcc                                                                                                                      <  2:114785/149‑1 (MQ=255)
                                       cgttgcgttgTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACACTACTACCCCGTAAGTAATTTTACCcg                                                                                                     >  1:316140/1‑149 (MQ=255)
                                                 tCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGc                                                                                           >  1:33249/1‑149 (MQ=255)
                                                      ttccaccaGATTGTCCACTGTGGCGTTAATCAAACTATTCTCTCTTGGACCAGGGAGATTCCGTAATGCCGGATGCGGTGTAACCACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGc                                                                                      <  2:284615/147‑1 (MQ=255)
                                                      tACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGc                                                                                      <  1:732943/149‑1 (MQ=255)
                                                        cccccaGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCGTCAACCAGGGGGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCa                                                                                    <  2:16831/146‑1 (MQ=255)
                                                          accaGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGGATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATCCTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGt                                                                                  >  1:656601/1‑149 (MQ=255)
                                                          accaGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGt                                                                                  <  1:273755/149‑1 (MQ=255)
                                                          accaGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGt                                                                                  <  1:36424/149‑1 (MQ=255)
                                                           ccaGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGtt                                                                                 >  1:678788/1‑149 (MQ=255)
                                                                      aCTGTTGCGTTAATCAAACTATTCTCTCTTGACCCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACctct                                                                      <  2:635339/149‑1 (MQ=255)
                                                                          ttGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACGCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGaca                                                                  >  2:33898/1‑149 (MQ=255)
                                                                              gTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGc                                                              >  2:379684/1‑149 (MQ=255)
                                                                                                tctTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCCTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTaataataat                                            >  1:245672/1‑149 (MQ=255)
                                                                                                  ttGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGt                                          >  2:722147/1‑149 (MQ=255)
                                                                                                    gAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACCCCGTAATTAATTTTGCCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACCGCATCATCGGTATTCATAAtctct                                        >  2:799420/1‑148 (MQ=255)
                                                                                                        cAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATAGAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAAttt                                    >  1:548544/1‑149 (MQ=255)
                                                                                                         aGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAAtttt                                   >  2:436199/1‑149 (MQ=255)
                                                                                                              gaATCCGTAATGCCGGATGCGGTGTAAAACCCTTATCCGGCATACAGAACAAGACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGa                              <  1:98614/149‑1 (MQ=255)
                                                                                                                aTCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGAtt                            >  2:359301/1‑149 (MQ=255)
                                                                                                                 tCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTg                           >  2:757086/1‑149 (MQ=255)
                                                                                                                   cGTAATGCCGGATGCGGTGTAAACACCTTCTCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCCCCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGgt                         >  1:489677/1‑149 (MQ=255)
                                                                                                                   cGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGgt                         >  1:791321/1‑149 (MQ=255)
                                                                                                                   cGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGgt                         >  1:650164/1‑149 (MQ=255)
                                                                                                                    gTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGgta                        >  1:363673/1‑149 (MQ=255)
                                                                                                                    gTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTCTCGATTGgta                        >  1:700210/1‑149 (MQ=255)
                                                                                                                      taTGCCGGATAAGGTGTTTACACCGCATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATATTAATGTCAATTTTTTCGATTGgtagt                      >  1:289137/2‑149 (MQ=38)
                                                                                                                      taTGCCGGATAAGGTGTTTACACCGCATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGgtagt                      >  2:203553/2‑149 (MQ=38)
                                                                                                                        tGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTAc                    >  2:163024/1‑149 (MQ=255)
                                                                                                                        tGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGACTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATCATAATGTCGATTTTTTCGATTTGTAGTAc                    >  1:259167/1‑149 (MQ=255)
                                                                                                                          ccGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAGTTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCt                  >  2:519543/1‑149 (MQ=255)
                                                                                                                          ccGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCt                  >  2:332023/1‑149 (MQ=255)
                                                                                                                            ggATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACCCCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGa                <  1:98814/149‑1 (MQ=255)
                                                                                                                                 cGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGATTaaa           <  1:576803/149‑1 (MQ=255)
                                                                                                                                  ggTGTAAACCCCTTATCCGGCATACATAACAATACTTCACAGTCTTGAGGCAAGCCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGATTaaaa          <  1:379684/149‑1 (MQ=255)
                                                                                                                                    ttcaaaCACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACCGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGATTAAAAcc        <  2:544468/146‑1 (MQ=255)
                                                                                                                                        aaCACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGATTAAAACCGCGa    >  2:339230/1‑149 (MQ=255)
                                                                                                                                        aaCACCTTATCCGGCACACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGATTAAAACCGCGa    <  2:684436/149‑1 (MQ=255)
                                                                                                                                        aaCACCCTATCCGGCATACAGAACAAGACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGATTAAAACCGCGa    <  2:376979/149‑1 (MQ=255)
                                                                                                                                          cacCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGTTTGGTTGTACCTGGTTGAAACCGCGCCg  >  2:110084/1‑149 (MQ=255)
                                                                                                                                              |                                                                                                                                                
TGAGTGGGCAAAATTTTCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGATTAAAACCGCGACG  >  NC_000913/2169529‑2169815

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑