Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 2,169,664 A→T 8.2% intergenic (+53/+29) 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_0009132,169,6640AT 8.2% 146.3 / 2.8 49intergenic (+53/+29)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 A (26/19);  new base T (2/2);  total (28/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.37e-01

GGCGAACCGTTGAGTGGGCAAAATTTTCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGATTAAAACC  >  NC_000913/2169519‑2169809
                                                                                                                                                 |                                                                                                                                                 
ggCGAACCGTTGAGTGGGCAAAATTTTCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCATATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAac                                                                                                                                                <  2:566937/149‑1 (MQ=255)
  cGAACCGTGGAGTGGGCAAAATTTTCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAacac                                                                                                                                              <  1:145712/149‑1 (MQ=255)
          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)
                                                                                                                                                 |                                                                                                                                                 
GGCGAACCGTTGAGTGGGCAAAATTTTCATATTGAAATACTTCCGGCAGCGTTGCGTTGTCGATTACCACCAGATTGTCCACTGTTGCGTTAATCAAACTATTCTCTCTTGAACCAGGGAGAATCCGTAATGCCGGATGCGGTGTAAACACCTTATCCGGCATACAGAACAATACTACACCGTAATTAATTTTACCCGCGTCTTCTGCAATGCCAGTTTATCCACCTCTGACACAGCATCATCGGTAATAATAATGTCAATTTTTTCGATTGGTAGTACCTGATTAAAACC  >  NC_000913/2169519‑2169809

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑