Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 56,296 A→G W272R (TGG→CGG)  lptD ← LPS assembly OM complex LptDE, beta‑barrel component

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_00091356,2960AG95.3% 209.2 / ‑0.7 64W272R (TGG→CGG) lptDLPS assembly OM complex LptDE, beta‑barrel component
Reads supporting (aligned to +/- strand):  ref base A (1/2);  new base G (30/31);  total (31/33)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.06e-01

TGGTTCCAGTAGAATAACCAACGACGTGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCACATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTAGTTGGTGGTGGTGTACTTGGCGTTCGGGATCA  >  NC_000913/56160‑56424
                                                                                                                                        |                                                                                                                                
tGGTTCCAGTAGAATAACCAACGACGTGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCcgca                                                                                                                                <  1:268112/139‑1 (MQ=255)
  gTTCCAGTAGAATAACCAACGACGTGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCatg                                                                                                                              >  2:931080/1‑139 (MQ=255)
    tCCAGTAGAATAACCAACGACGTGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCatgat                                                                                                                            <  2:540754/139‑1 (MQ=255)
    tCCAGTAGAATAACCAACGACGTGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCatgat                                                                                                                            <  2:838716/139‑1 (MQ=255)
    tCCAGTAGAATAACCAACGACGTGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCACatgat                                                                                                                            <  2:1029311/139‑1 (MQ=255)
             aTAACCAACGACGTGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCacg                                                                                                                   <  2:6529/139‑1 (MQ=255)
              tAACCAACGACGTGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCatga                                                                                                                  <  2:623511/139‑1 (MQ=255)
                    acgacgTGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGc                                                                                                            <  1:931080/139‑1 (MQ=255)
                          tGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATaa                                                                                                      >  1:445687/1‑139 (MQ=255)
                                 tCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATgc                                                                                                   <  1:500459/135‑1 (MQ=255)
                                 tCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATgc                                                                                                   >  2:500459/1‑135 (MQ=255)
                                        tCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGAtggt                                                                                        <  1:903205/139‑1 (MQ=255)
                                             tgtTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCAt                                                                                   <  2:951403/139‑1 (MQ=255)
                                               ttCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATcc                                                                                 >  2:944813/1‑139 (MQ=255)
                                                      tCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGt                                                                                                                          <  1:985432/91‑1 (MQ=255)
                                                      tCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGt                                                                                                                          >  2:985432/1‑91 (MQ=255)
                                                      tCATAGACTTTATCTGAAGGAAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATAttcg                                                                          >  2:632872/1‑137 (MQ=255)
                                                       cATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTgg                                                                         <  1:282970/139‑1 (MQ=255)
                                                         tAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATATGgcg                                                                       <  2:445687/139‑1 (MQ=255)
                                                           gACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGcgcg                                                                     <  1:632872/139‑1 (MQ=255)
                                                              tttATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGgcg                                                                       <  1:239811/134‑1 (MQ=255)
                                                              tttATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGgcg                                                                       >  2:239811/1‑134 (MQ=255)
                                                              tttATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATg                                                                  >  1:1024773/1‑139 (MQ=255)
                                                              tttATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATg                                                                  >  1:573329/1‑139 (MQ=255)
                                                                tATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCAcgacga                                                                                                               <  2:392616/92‑1 (MQ=255)
                                                                tATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCAcgacga                                                                                                               >  1:392616/1‑92 (MQ=255)
                                                                 aTCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTc                                                               <  2:908385/139‑1 (MQ=255)
                                                                 aTCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTc                                                               >  1:1046503/1‑139 (MQ=255)
                                                                      aaGGCAGATAGTCCAGCTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTa                                                          >  1:127857/1‑139 (MQ=255)
                                                                       aGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCacgac                                                                                                                 <  1:880233/83‑1 (MQ=255)
                                                                       aGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCacgac                                                                                                                 >  2:880233/1‑83 (MQ=255)
                                                                        ggCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAat                                                        >  2:205167/1‑139 (MQ=255)
                                                                        ggCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAat                                                        >  2:531171/1‑139 (MQ=255)
                                                                            gATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGa                                                                    <  2:348085/123‑1 (MQ=255)
                                                                            gATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGa                                                                    >  1:348085/1‑123 (MQ=255)
                                                                             aTAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGc                                                   >  1:514767/1‑139 (MQ=255)
                                                                                 tCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGAt                                                                                                              <  1:866109/76‑1 (MQ=255)
                                                                                 tCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGAt                                                                                                              >  2:866109/1‑76 (MQ=255)
                                                                                      ttCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGAt                                                                                                              <  1:946783/71‑1 (MQ=255)
                                                                                      ttCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGAt                                                                                                              >  2:946783/1‑71 (MQ=255)
                                                                                      ttCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTcc                                                              >  1:259287/1‑119 (MQ=255)
                                                                                      ttCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTcc                                                              <  2:259287/119‑1 (MQ=255)
                                                                                      ttCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCACATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAAc                                          >  1:320644/1‑139 (MQ=255)
                                                                                       tCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCacgacg                                                                                                                <  2:991235/68‑1 (MQ=255)
                                                                                       tCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCacgacg                                                                                                                >  1:991235/1‑68 (MQ=255)
                                                                                       tCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACt                                         >  2:362314/1‑139 (MQ=255)
                                                                                           tCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCaaa                                     <  1:362314/139‑1 (MQ=255)
                                                                                                ccAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAagtagt                                <  1:944813/139‑1 (MQ=255)
                                                                                                   gcgcCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTAGTtgg                             <  1:205167/139‑1 (MQ=255)
                                                                                                   gcgcCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTAGTtgg                             <  1:531171/139‑1 (MQ=255)
                                                                                                    cgcccgccTGGGAGAGGTAGCGGAATTCGTTCTCCCACATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTAGTtggt                            <  2:320644/139‑1 (MQ=255)
                                                                                                                     tAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGgcg                                                                       <  2:877255/79‑1 (MQ=255)
                                                                                                                     tAGCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGgcg                                                                       >  1:877255/1‑79 (MQ=255)
                                                                                                                       gCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTcc                                                              >  2:546903/1‑86 (MQ=255)
                                                                                                                       gCGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTcc                                                              <  1:546903/86‑1 (MQ=255)
                                                                                                                        cGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGAtggt                                                                                        <  1:362587/59‑1 (MQ=255)
                                                                                                                        cGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGAtggt                                                                                        >  2:362587/1‑59 (MQ=255)
                                                                                                                        cGGAATTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTAGTTGGTGGTGGTGTACTTGGCGTTCg        >  2:507535/1‑139 (MQ=255)
                                                                                                                        cGGAACACGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAAATCAAAGTAGTTGGTGGTGGTGTACTTGGcctacg        >  2:268292/1‑134 (MQ=255)
                                                                                                                            aTTCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTAGTTGGTGGTGGTGTACTTGGCGTTCGGGAt    <  2:514767/139‑1 (MQ=255)
                                                                                                                             ttCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGAtggt                                                                                        <  2:126775/54‑1 (MQ=255)
                                                                                                                             ttCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGAtggt                                                                                        >  1:126775/1‑54 (MQ=255)
                                                                                                                              tCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGAtggtgg                                                                                      <  2:133272/55‑1 (MQ=255)
                                                                                                                              tCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGAtggtgg                                                                                      >  1:133272/1‑55 (MQ=255)
                                                                                                                              tCGTTCTCCCGCATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTAGTTGGTGGTGGTGTACTTGGCGTTCGGGATCa  >  1:492522/1‑139 (MQ=255)
                                                                                                                                        |                                                                                                                                
TGGTTCCAGTAGAATAACCAACGACGTGAACTGTCATCGTTCGGGTGTTCATCTTCATAGACTTTATCTGAAGGCAGATAGTCCAGTTCCATCAAGCCAGCGCCCGCCTGGGAGAGGTAGCGGAATTCGTTCTCCCACATGATGTTGCCACGACGATGCATATAATGCGGCGTGATGGTGGCATCCATATTTGGCGCGATGTTCCAGTAATATGGCAGGTAGAACTCAAAGTAGTTGGTGGTGGTGTACTTGGCGTTCGGGATCA  >  NC_000913/56160‑56424

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑