Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 92,987 A→G 7.7% intergenic (‑72/‑65) yrkD ← / → yrkE hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP00073092,9870AG 7.7% 139.1 / 4.0 52intergenic (‑72/‑65)yrkD/yrkEhypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (21/27);  new base G (2/2);  total (23/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.14e-01

TTTAATAATTCCATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGCCAAGCAAGGGCAA  >  CP000730/92847‑93126
                                                                                                                                            |                                                                                                                                           
tttAATAATTGCATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCGTAGCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTaga                                                                                                                                             <  2:653846/141‑1 (MQ=255)
tttAATAATTCCATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTaga                                                                                                                                             >  2:311915/1‑141 (MQ=255)
tttAATAATTCCATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTaga                                                                                                                                             <  2:434042/141‑1 (MQ=255)
    ataatTCCATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTa                                                                                                                                         >  2:635539/1‑141 (MQ=255)
    ataatTCCATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATCTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTa                                                                                                                                         >  2:186713/1‑141 (MQ=255)
       atTCCATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATACTAATAGATAAACACAAATGTGTCAAATACCTCTAGGGGTAttt                                                                                                                                      <  2:486751/141‑1 (MQ=255)
        ttCCATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTg                                                                                                                                     >  1:133332/1‑141 (MQ=255)
        ttCCATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTg                                                                                                                                     <  1:642346/141‑1 (MQ=255)
           cATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACa                                                                                                                                  <  2:531905/141‑1 (MQ=255)
              ttAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGt                                                                                                                               <  2:228754/141‑1 (MQ=255)
              ttAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGt                                                                                                                               >  1:256025/1‑141 (MQ=255)
                   tGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTagag                                                                                                                                            <  2:353670/123‑1 (MQ=255)
                   tGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTagag                                                                                                                                            >  1:353670/1‑123 (MQ=255)
                         tGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACt                                                                                                                    >  1:175730/1‑141 (MQ=255)
                          gTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTg                                                                                                                   >  1:662504/1‑141 (MQ=255)
                           tATTCTATTAATACGATTCATCATTTTTTTATCATAATTCATAGACATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGt                                                                                                                  <  1:654121/141‑1 (MQ=255)
                           tATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGt                                                                                                                  >  1:626524/1‑141 (MQ=255)
                             ttCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGttt                                                                                                                >  2:575714/1‑141 (MQ=255)
                               cTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCCAGTCAGTTGACAAGAAGATGAGAAGTTCCATCCAACTGTTTaa                                                                                                              >  1:490862/1‑141 (MQ=255)
                                    aaTACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAAGATATTAATAGATAAACACAAATGTGACATATACCCCTAGAGGTATTTGACAACATCCAAGCAACTTTTTgaacaaa                                                                                                         >  2:180056/1‑137 (MQ=255)
                                            tAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACTCCTACAg                                                                                                 <  1:625294/141‑1 (MQ=255)
                                                 aTTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTAtt                                                                                            <  1:212203/141‑1 (MQ=255)
                                                        tATCATAATTCATTGTCAAACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAggg                                                                                     <  1:35449/141‑1 (MQ=255)
                                                           cATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAgg                                                                                  <  1:460108/141‑1 (MQ=255)
                                                                ttCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATTCAACCGTTTAGAATACCCCTACAGGTATTTTTAGGGAGGttatt                                                                             <  1:527250/141‑1 (MQ=255)
                                                                  cATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTtattat                                                                           <  1:608446/141‑1 (MQ=255)
                                                                  cATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTtattat                                                                           >  1:177534/1‑141 (MQ=255)
                                                                    tAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTAAAATACCACTAGAGCTATTTAACAAGTTCAATCCAACTCTTTACAATAAACGTATACATATTTTTAGGCAGGataatttaa                                                                         >  2:414816/1‑135 (MQ=255)
                                                                      gTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGaaa                                                                       <  1:90856/141‑1 (MQ=255)
                                                                         aTACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACaa                                                                    >  2:567027/1‑141 (MQ=255)
                                                                           aCCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATa                                                                  <  2:538956/141‑1 (MQ=255)
                                                                                     ttAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAg                                                        <  1:364415/141‑1 (MQ=255)
                                                                                       aaTTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGtt                                                      <  1:280446/141‑1 (MQ=255)
                                                                                        aTTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGttt                                                     >  1:249877/1‑141 (MQ=255)
                                                                                        aTTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGttt                                                     <  1:402995/141‑1 (MQ=255)
                                                                                             aTAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGa                                                >  1:42496/1‑141 (MQ=255)
                                                                                             aTAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGa                                                <  2:311737/141‑1 (MQ=255)
                                                                                                     atatTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTa                                        >  2:389074/1‑141 (MQ=255)
                                                                                                         tAATAGATAAACACAAACCAATTAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTaa                                    <  1:5919/141‑1 (MQ=255)
                                                                                                          aaTAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTaaa                                   >  1:548540/1‑141 (MQ=255)
                                                                                                          aaTAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTaaa                                   <  1:124606/141‑1 (MQ=255)
                                                                                                                 aaaCACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGCAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAAt                            <  2:390261/141‑1 (MQ=255)
                                                                                                                   acacAAATGTGTCAAATACCCCTAGAGGTATTTGATAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTg                          <  1:122564/141‑1 (MQ=255)
                                                                                                                    aacaAATGTGTCAAATAACCCTAGAGGTATTTGACAAGTTAAAAAAAAAAATAAAAAATACCCCTACAGGGATTTTTAGGGAGGTTATTATGAAACAATACGTAGAAAAGTTTATCGATGAATTTAGTaaaaaaaaaaaaa                         <  2:490862/140‑11 (MQ=255)
                                                                                                                             gtCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAg                <  2:16670/141‑1 (MQ=255)
                                                                                                                             gtCAAATACACCTAGAGGTATTTGACAAGTTCCAACCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAg                <  1:239443/141‑1 (MQ=255)
                                                                                                                              tCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGc               <  2:626524/141‑1 (MQ=255)
                                                                                                                               cAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGcc              <  1:610744/141‑1 (MQ=255)
                                                                                                                               cAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGcc              <  1:186713/141‑1 (MQ=255)
                                                                                                                                    aCCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGCcaagca         <  2:665207/141‑1 (MQ=255)
                                                                                                                                      ctcTAGGGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGCcaagcaag       >  2:389789/3‑141 (MQ=255)
                                                                                                                                      cccTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTTGAAAAACTAGCcaagcaag       >  2:415284/1‑141 (MQ=255)
                                                                                                                                      cccTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGCcaagcaag       >  1:117107/1‑141 (MQ=255)
                                                                                                                                      cccTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGCcaagcaag       >  2:358980/1‑141 (MQ=255)
                                                                                                                                       tcTAGGGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTaa                                    >  2:455434/2‑111 (MQ=255)
                                                                                                                                       tcTAGGGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTaa                                    <  1:455434/110‑1 (MQ=255)
                                                                                                                                         tAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGCCAAGCAAGGGc    >  1:555601/1‑141 (MQ=255)
                                                                                                                                           gagGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGCCAAGCAAGGGCaa  <  1:360431/141‑1 (MQ=255)
                                                                                                                                           aagGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGCCAAGCAAGGGCaa  <  1:634342/140‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                           
TTTAATAATTCCATTTAGTTGCCCTTGTATTCTATTAATACGATTAATCATTTTTTTATCATAATTCATAGTCATACCTCCACTTTTAATTGAATAAAAATATATTAATAGATAAACACAAATGTGTCAAATACCCCTAGAGGTATTTGACAAGTTCCATCCAACTGTTTAAAATACCCCTACAGGTATTTTTAGGGAGGTTATTATGAAACAATACGGAGAAAAGTTTATCGATGAATTTAGTAAAGCAGAATTGGAAAAACTAGCCAAGCAAGGGCAA  >  CP000730/92847‑93126

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑