Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 2,044,879 A→G 6.6% intergenic (+320/+275) U712_10115 → / ← U712_10120 Transcriptional regulatory protein desR/Cell wall‑binding protein yocH

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068812,044,8790AG 6.6% 173.7 / 4.1 61intergenic (+320/+275)U712_10115/U712_10120Transcriptional regulatory protein desR/Cell wall‑binding protein yocH
Reads supporting (aligned to +/- strand):  ref base A (27/30);  new base G (2/2);  total (29/32)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.75e-01

GCACATCAGCAGAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGCCGAATGTCTCTGTAATGTGGAATCAA  >  CP006881/2044743‑2045011
                                                                                                                                        |                                                                                                                                    
gCACATCAGCAGAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGAt                                                                                                                                     <  6:75946/138‑1 (MQ=255)
    aTCAGCAGAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCg                                                                                                                                 >  1:277273/1‑138 (MQ=255)
    aTCAGCAGAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGt                                                                                                                                <  2:277273/139‑1 (MQ=255)
     tCAGCAGAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGt                                                                                                                                >  6:15475/1‑138 (MQ=255)
      cagcagAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTa                                                                                                                               >  4:304481/1‑138 (MQ=255)
       agcagAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTaaa                                                                                                                             <  2:55283/139‑1 (MQ=255)
       agcagAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTaa                                                                                                                              <  5:15475/138‑1 (MQ=255)
         cagAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATg                                                                                                                           >  1:171239/1‑139 (MQ=255)
           gtaTTTCTGATTTTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCTCATCGCTCCCGAAGCTGCCATGCCCAACTTCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGt                                                                                                                         <  3:252873/137‑1 (MQ=255)
           gAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATgg                                                                                                                          >  5:37733/1‑138 (MQ=255)
           gAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGt                                                                                                                         <  3:304481/139‑1 (MQ=255)
             aTTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTAt                                                                                                                       <  1:335338/139‑1 (MQ=255)
              tttCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGAt                                                                                                                                     >  5:220293/1‑124 (MQ=255)
              tttCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGAt                                                                                                                                     <  6:220293/124‑1 (MQ=255)
                tCTGATATTGATTATATTGTATTTTCAGTATGACAAAGGTGGGCCACGTCGCGCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTG‑AATCAATCCGATACCGTAACTGGTATCTg                                                                                                                    <  7:140889/138‑1 (MQ=255)
                 cTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTg                                                                                                                    <  3:314196/138‑1 (MQ=255)
                     tatTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACa                                                                                                               <  6:278890/139‑1 (MQ=255)
                          aTTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCaa                                                                                                          <  1:321863/139‑1 (MQ=255)
                           ttATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCaa                                                                                                          <  2:171239/138‑1 (MQ=255)
                           ttATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCaa                                                                                                          <  1:170116/138‑1 (MQ=255)
                              tatTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATCCCCAACTGCAAGAGCCTAATATCACAATAAAAATCCGTCTTAAATCAATACGATTCCGTAAATTGAATCTGCTCCATCCAACTGc                                                                                                      >  8:188408/1‑139 (MQ=255)
                                   tATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACa                                                                                                               <  6:109226/125‑1 (MQ=255)
                                   tATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACa                                                                                                               >  5:109226/1‑125 (MQ=255)
                                     ttttCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTtattat                                                                                               <  4:209978/139‑1 (MQ=255)
                                     ttttCAGTATGACAAAGGGGTGCCACATCGCTCCCGAAGCGGCCATGCCCACCTGCCAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTtattat                                                                                               <  5:293597/139‑1 (MQ=255)
                                              tGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCaaa                                                                                       <  6:37733/138‑1 (MQ=255)
                                                      ttGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCATTCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCCGc                                                                              >  4:241219/1‑139 (MQ=255)
                                                      ttGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGAt                                                                                                                                     >  8:35086/1‑84 (MQ=255)
                                                      ttGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGAt                                                                                                                                     <  7:35086/84‑1 (MQ=255)
                                                         tgCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCaa                                                                                                          <  8:173409/108‑1 (MQ=255)
                                                         tgCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCaa                                                                                                          >  7:173409/1‑108 (MQ=255)
                                                              cTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCg                                                                      >  7:298890/1‑139 (MQ=255)
                                                              cTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCg                                                                      >  3:308634/1‑139 (MQ=255)
                                                                tCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCt                                                                    >  3:247728/1‑139 (MQ=255)
                                                                      ccGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAACAACACCAGCTCGTTTCGCTGATCa                                                               >  6:72017/1‑138 (MQ=255)
                                                                                cATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTaa                                                     >  1:174310/1‑138 (MQ=255)
                                                                                    cccAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAAcc                                                <  8:298890/139‑1 (MQ=255)
                                                                                         cTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCta                                           >  3:308730/1‑139 (MQ=255)
                                                                                            cAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGAATCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAATATAGTAACAACCAGCtat                                          <  1:76205/137‑1 (MQ=255)
                                                                                              agagCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGGTTCCGTAAATGGTATCTg                                                                                                                    <  8:127364/61‑1 (MQ=255)
                                                                                              agagCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGGTTCCGTAAATGGTATCTg                                                                                                                    <  8:123028/61‑1 (MQ=255)
                                                                                              agagCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGGTTCCGTAAATGGTATCTg                                                                                                                    >  7:127364/1‑61 (MQ=255)
                                                                                              agagCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGGTTCCGTAAATGGTATCTg                                                                                                                    >  7:123028/1‑61 (MQ=255)
                                                                                                   cTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCtat                                          <  6:278872/130‑1 (MQ=255)
                                                                                                   cTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCtat                                          >  5:278872/1‑130 (MQ=255)
                                                                                                   cTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCat                                 <  7:188408/139‑1 (MQ=255)
                                                                                                    tAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACACCCAGCTATAAATGTCat                                 >  1:192639/1‑138 (MQ=255)
                                                                                                          cacaATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGcc                           >  4:132372/1‑138 (MQ=255)
                                                                                                            caATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGCCGaa                        <  4:247728/139‑1 (MQ=255)
                                                                                                               tAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGCCGAATGt                     >  8:194979/1‑139 (MQ=255)
                                                                                                               tAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGCCGAAGGt                     >  2:189457/1‑139 (MQ=255)
                                                                                                                 aaaaaCCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGCCGAATGtct                   <  4:308730/139‑1 (MQ=255)
                                                                                                                      ccGTCTGAAATCAATCCGATTCCGTAAATGGAATCTGCTACATCCAACTGCTTATTCTCTGCCAAAAACACCAGCTCGTTGCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGCCGAATGTCTCTGTa              <  6:59739/139‑1 (MQ=255)
                                                                                                                        gTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGCCGAATGTCTCTGTAAt            >  3:8237/1‑139 (MQ=255)
                                                                                                                         tCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCatgatg                             <  3:153437/121‑1 (MQ=255)
                                                                                                                         tCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCatgatg                             >  4:153437/1‑121 (MQ=255)
                                                                                                                         tCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGCCGAATGt                     <  2:255559/129‑1 (MQ=255)
                                                                                                                         tCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGCCGAATGt                     >  1:255559/1‑129 (MQ=255)
                                                                                                                           tGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAAcc                                                <  4:170291/100‑1 (MQ=255)
                                                                                                                           tGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAAcc                                                >  3:170291/1‑100 (MQ=255)
                                                                                                                                   atcCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATCTCATGATGCCGAATGTCTCTGTAATGAGGaatcaa  >  1:274898/1‑138 (MQ=255)
                                                                                                                                        |                                                                                                                                    
GCACATCAGCAGAATTTCTGATATTGATTATATTGTATTTTCAGTATGACAAAGTTGTGCCACTTCGCTCCCGAAGCTGCCATGCCCAACTGCAAGAGCCTAATATCACAATAAAAAACCGTCTGAAATCAATCCGATTCCGTAAATGGTATCTGCTACATCCAACTGCTTATTATCTGCCAAAAACACCAGCTCGTTTCGCTGATCAAAGATAGTAACAACCAGCTATAAATGTCATGATGCCGAATGTCTCTGTAATGTGGAATCAA  >  CP006881/2044743‑2045011

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑