Predicted mutation
evidence seq id position mutation annotation gene description
RA NZ_CP009273 1,069,819 T→G L41R (CTG→CGG)  rutR → HTH‑type transcriptional regulator RutR

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,069,8190TG98.0% 173.6 / ‑3.7 50L41R (CTG→CGG) rutRHTH‑type transcriptional regulator RutR
Reads supporting (aligned to +/- strand):  ref base T (1/0);  new base G (25/24);  total (26/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.41e-01

GGGAGAGCGCATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCTGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGCCGTGCTGCGGCAGATTCTCGATATCTGGCTGGCACCGTTAAAAGCGTTTCGTG  >  NZ_CP009273/1069688‑1069953
                                                                                                                                   |                                                                                                                                      
gggAGAGCGCATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAg                                                                                                                                    >  1:1053834/1‑136 (MQ=255)
gggAGAGCGCATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAg                                                                                                                                    >  2:16661/1‑136 (MQ=255)
gggAGAGCGCATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAg                                                                                                                                    >  1:757086/1‑136 (MQ=255)
gggAGAGCGCATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAg                                                                                                                                    >  1:416871/1‑136 (MQ=255)
  gagaGCGCATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAg                                                                                                                                    >  1:994155/1‑134 (MQ=255)
  gagaGCGCATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAg                                                                                                                                    >  2:211034/1‑134 (MQ=255)
     agCGCATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCTGGAGCAGATCg                                                                                                                             >  1:1131327/1‑138 (MQ=255)
     agCGCATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCg                                                                                                                             >  2:1141115/1‑138 (MQ=255)
        gcATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCa                                                                                                                           >  2:317591/1‑137 (MQ=255)
         cATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCagag                                                                                                                        >  1:779144/1‑139 (MQ=255)
          aTGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACCCTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGt                                                                                                                       >  2:716404/1‑139 (MQ=255)
           tGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGtt                                                                                                                      >  2:158787/1‑139 (MQ=255)
                          tGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGAt                                                                                                                               <  2:818490/115‑1 (MQ=255)
                          tGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGAt                                                                                                                               >  1:818490/1‑115 (MQ=255)
                          tGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCaaa                                                                                                       <  1:600575/139‑1 (MQ=255)
                          tGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCaa                                                                                                        >  2:569803/1‑138 (MQ=255)
                                  acGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATc                                                                                               <  2:166518/139‑1 (MQ=255)
                                    gggTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATctg                                                                                             >  1:79104/1‑139 (MQ=255)
                                    gggTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATctg                                                                                             <  2:1053834/139‑1 (MQ=255)
                                    gggTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATctg                                                                                             <  2:1196444/139‑1 (MQ=255)
                                    gggTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATctg                                                                                             <  1:1118237/139‑1 (MQ=255)
                                    gggTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATctg                                                                                             <  1:1024329/139‑1 (MQ=255)
                                      gTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCGATctgct                                                                                           >  1:1035368/1‑139 (MQ=255)
                                      gTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATctg                                                                                             <  2:720291/137‑1 (MQ=255)
                                      gTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATctg                                                                                             >  1:720291/1‑137 (MQ=255)
                                                          aGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAag                                                                       <  2:757086/139‑1 (MQ=255)
                                                          aGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAag                                                                       <  2:994155/139‑1 (MQ=255)
                                                          aGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAag                                                                       <  1:372982/139‑1 (MQ=255)
                                                             gcgAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAgg                                                                    <  1:768771/139‑1 (MQ=255)
                                                               gaagaaAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGgcg                                                                  <  1:1193198/139‑1 (MQ=255)
                                                               gaagaaAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGgcg                                                                  <  1:624241/139‑1 (MQ=255)
                                                               gaagaaAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGgcg                                                                  <  1:211034/139‑1 (MQ=255)
                                                               gaagaaAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGgcg                                                                  <  1:506330/139‑1 (MQ=255)
                                                                aagaaAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAAt                                                                                                <  1:642435/108‑1 (MQ=255)
                                                                aagaaAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGgcgc                                                                 >  1:878310/1‑139 (MQ=255)
                                                                aagaaAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTAACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAAt                                                                                                >  2:642435/1‑108 (MQ=255)
                                                                          cGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGc                                                       <  1:569803/139‑1 (MQ=255)
                                                                            aTTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGCCg                                                     <  1:317591/139‑1 (MQ=255)
                                                                                                 acTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTg                                                                                                                     <  1:1066722/54‑1 (MQ=255)
                                                                                                 acTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTg                                                                                                                     >  2:1066722/1‑54 (MQ=255)
                                                                                                 acTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGCCGTGCTGCGGCAGa                                         <  1:450453/130‑1 (MQ=255)
                                                                                                 acTTTTTCACAATTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGCCGTGCTGCGGCAGa                                         >  2:450453/1‑130 (MQ=255)
                                                                                                   tttttCACAATTCGGTTTTCACGGCACAAGGCGGGAGCCGCTCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGCCGTGCTGCGGCAGATTCTCGATATc                              >  1:666874/1‑139 (MQ=255)
                                                                                                            aTTCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCTATCTGCTGTATTACTTTCCGTCAAAAGACGCGCTGTATATTGCCGTGCTGCGGCAGATTCTCGATATCTGGCTGGCa                     <  1:779236/139‑1 (MQ=255)
                                                                                                             ttCGGTTTTCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGCCGTGCTGCGGCAGATTCTCGATATCTGGCTGGCAc                    >  1:1164938/1‑139 (MQ=255)
                                                                                                                     tCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATctg                                                                                             <  2:578379/58‑1 (MQ=255)
                                                                                                                     tCACGGCACAAGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATctg                                                                                             >  1:578379/1‑58 (MQ=255)
                                                                                                                              aaGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGCCGTGCTGCGGCAGATTCTCGATATCTGGCTGGCACCGTTAAAAGCGTTTCGt   >  2:1020856/1‑139 (MQ=255)
                                                                                                                               aGGCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGCCGTGCTGCGGCAGATTCTCGATATCTGGCTGGCACCGTTAAAAGCGTTTCGTg  <  1:1020856/139‑1 (MQ=255)
                                                                                                                                ggCGGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGCCGTGCTGCGGCAGATTCTCGATATCTGGCTGGCACCGTTACAAGCGTTTCGTg  >  2:913718/1‑138 (MQ=255)
                                                                                                                                   |                                                                                                                                      
GGGAGAGCGCATGACGCAAGGCGCAGTGAAAACAACGGGTAAACGTTCGCGCGCAGTAAGCGCGAAGAAAAAAGCGATTCTTAGCGCAGCACTGGACACTTTTTCACAATTCGGTTTTCACGGCACAAGGCTGGAGCAGATCGCAGAGTTGGCGGGTGTTTCAAAAACCAATCTGCTGTATTACTTTCCGTCAAAAGAGGCGCTGTATATTGCCGTGCTGCGGCAGATTCTCGATATCTGGCTGGCACCGTTAAAAGCGTTTCGTG  >  NZ_CP009273/1069688‑1069953

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑