Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,140,058 A→G Y9C (TAC→TGC)  flgL → flagellar hook‑filament junction protein 2

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,140,0580AG98.2% 195.4 / NA 57Y9C (TAC→TGC) flgLflagellar hook‑filament junction protein 2
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base G (29/27);  minor base T (0/1);  total (29/28)
Fisher's exact test for biased strand distribution p-value = 4.91e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TACGGAAATCTGCAACGTTTTCAGCAGTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTACCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATCACAAGCCGTAGTTCTCTCCCA  >  NC_000913/1139923‑1140193
                                                                                                                                       |                                                                                                                                       
tACGGAAATCTGCAACGTTTTCAGCAGTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACACTCGCTAAGCGGAGATAGGATGCGTTCCAGTGCACAGATGATGTGCCAg                                                                                                                                     >  2:237596/1‑140 (MQ=255)
     aaaTCTGCAACGTTTTCAGCAGTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGTGTTTCAGTGCACAAATGATGTGCCAGCaaaa                                                                                                                                >  2:239808/1‑140 (MQ=255)
          tGCAACGTTTTCAGCAGTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCTAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGc                                                                                                                           <  1:11478/140‑1 (MQ=255)
          tGCAACGTTTTCAGCAGTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTTAGTACACATATGATGTGCCAGCAAAACATGc                                                                                                                           >  2:375488/1‑140 (MQ=255)
          tGCAACGTTTTCAGCAGTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGc                                                                                                                           >  1:644516/1‑140 (MQ=255)
           gCAACGTTTTCAGCACTATTACCTGCCGAATGCGCAGCTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCg                                                                                                                          <  1:254268/140‑1 (MQ=255)
               cGTTTTCAGCAGTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGt                                                                                                                      >  2:192921/1‑140 (MQ=255)
               cGTTTTCAGCAGTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGt                                                                                                                      <  1:161318/140‑1 (MQ=255)
                 ttttCAGCAGTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTAt                                                                                                                    <  2:591129/140‑1 (MQ=255)
                         agTATTACCTGGCGACTGCGCATGTCCTGCAGACGGCTAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAAtt                                                                                                            <  1:237596/140‑1 (MQ=255)
                          gTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGA‑TAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATtct                                                                                                          <  2:31518/140‑1 (MQ=255)
                           tATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATtct                                                                                                          <  1:494704/140‑1 (MQ=255)
                             ttACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCa                                                                                                        <  1:194340/140‑1 (MQ=255)
                                  tGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAg                                                                                                   >  1:415439/1‑140 (MQ=255)
                                  tGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACAAAGATGATGAGCCGGCACAACATGCGAGGTAACACCAATTCTCAGGCAg                                                                                                   >  2:290230/1‑140 (MQ=255)
                                     cGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAAt                                                                                                >  2:139749/1‑140 (MQ=255)
                                     cGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAAt                                                                                                <  1:139749/140‑1 (MQ=255)
                                     cGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACACGCGAGGTATCACCGATTCTCAGGCAGAAt                                                                                                >  1:346882/1‑140 (MQ=255)
                                       aaTGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATgg                                                                                              >  2:458997/1‑140 (MQ=255)
                                       aaTGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCACCAAAACATGCGTGGTAACACCCATTCTCAGGCAGAATgg                                                                                              >  2:361050/1‑140 (MQ=255)
                                        aTGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGa                                                                                             <  1:458997/140‑1 (MQ=255)
                                         tGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGAt                                                                                            >  1:562715/1‑140 (MQ=255)
                                              aGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAg                                                                                                   <  1:105872/128‑1 (MQ=255)
                                              aGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAg                                                                                                   >  2:105872/1‑128 (MQ=255)
                                                  tCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACgg                                                                                   <  1:192921/140‑1 (MQ=255)
                                                      cAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGaa                                                                               <  1:482999/140‑1 (MQ=255)
                                                         aCGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAg                                                                            <  1:94710/140‑1 (MQ=255)
                                                          cGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGa                                                                           <  2:799983/140‑1 (MQ=255)
                                                              aaaCGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTc                                                                       >  2:612879/1‑140 (MQ=255)
                                                                                gcTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGc                                                            >  2:105682/1‑133 (MQ=255)
                                                                                gcTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGc                                                            <  1:105682/133‑1 (MQ=255)
                                                                                 cTGATTAACATTCGCTATGGGGCGATAAGATACGTCTCACTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGtt                                                    <  2:346882/140‑1 (MQ=255)
                                                                                   gATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTaa                                                  <  2:36674/140‑1 (MQ=255)
                                                                                    aTTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTaa                                                  >  1:680434/1‑139 (MQ=255)
                                                                                    aTTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTaa                                                  <  2:680434/139‑1 (MQ=255)
                                                                                          aTTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCt                                           <  1:753560/140‑1 (MQ=255)
                                                                                          aTTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGAGAACAGAGGTCGACGGATAAGGGAGTCGTTAACCCTTCt                                           >  2:208930/1‑140 (MQ=255)
                                                                                              gCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACg                                       >  2:634200/1‑140 (MQ=255)
                                                                                              gCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACg                                       >  2:91525/1‑140 (MQ=255)
                                                                                              gCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACg                                       >  1:89695/1‑140 (MQ=255)
                                                                                                  aGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATcc                                   <  1:147901/140‑1 (MQ=255)
                                                                                                         aTAAGATGCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATtgct                            <  1:91525/140‑1 (MQ=255)
                                                                                                           aaGATGCGTTTCAGTCCACAGACGAAGTGACAGCAAACCATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATtgctgc                          <  1:239808/140‑1 (MQ=255)
                                                                                                                gCGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATcac                     <  2:562715/140‑1 (MQ=255)
                                                                                                                 cGTTTCAGTACACAGGTGATGTTCCAGCAGAACATGCCTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATcaca                    <  1:361050/140‑1 (MQ=255)
                                                                                                                 cGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAAGCCTGCTAACGATCACATTGCTGCATcaca                    >  1:254350/1‑140 (MQ=255)
                                                                                                                 cGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATcaca                    <  1:765625/140‑1 (MQ=255)
                                                                                                                 cGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATcaca                    >  1:194366/1‑140 (MQ=255)
                                                                                                                 cGTTTCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATcaca                    <  2:89695/140‑1 (MQ=255)
                                                                                                                   tttCAGTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCGTTCTGACGATCCCATTGCTGCATCACAAg                  >  1:769050/1‑140 (MQ=255)
                                                                                                                        gTACACAGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATCACAAGCCGTa             >  2:123278/1‑140 (MQ=255)
                                                                                                                            acaGATGATGTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATCACAAGCCGTAGTtc         >  1:746632/1‑140 (MQ=255)
                                                                                                                                atgatgTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGTGTCGTTAACCCTTCTGACGATCCCATTGCTGCATCACAAGCCGTAGTtctctc     >  1:730991/1‑140 (MQ=255)
                                                                                                                                atgatgTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATcaca                    <  1:641328/125‑1 (MQ=255)
                                                                                                                                atgatgTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATcaca                    >  2:641328/1‑125 (MQ=255)
                                                                                                                                   atgTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATCACAAGCCGTAGTTCTCTCCCa  >  2:651496/1‑140 (MQ=255)
                                                                                                                                   atgTGCCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATCACAAGCCGTAGTTCTCTCCCa  >  2:674917/1‑140 (MQ=255)
                                                                                                                                       |                                                                                                                                       
TACGGAAATCTGCAACGTTTTCAGCAGTATTACCTGGCGAATGCGCAGGTTCTGCAGACGGCAAACGCGATTTTTGATGCGCTGATTAACATTCGCTAAGGGGAGATAAGATGCGTTTCAGTACACAGATGATGTACCAGCAAAACATGCGTGGTATCACCAATTCTCAGGCAGAATGGATGAAGTACGGCGAACAGATGTCGACGGGTAAGCGAGTCGTTAACCCTTCTGACGATCCCATTGCTGCATCACAAGCCGTAGTTCTCTCCCA  >  NC_000913/1139923‑1140193

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑