Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 1,530,496 G→T 7.3% intergenic (+92/‑90) ydcD → / → yncI putative immunity protein for RhsE/pseudogene

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,530,4960GT 7.3% 194.0 / 6.0 55intergenic (+92/‑90)ydcD/yncIputative immunity protein for RhsE/pseudogene
Reads supporting (aligned to +/- strand):  ref base G (26/25);  new base T (2/2);  total (28/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.07e-01

TAACAATTTGAAAAATGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAGTATTCAAAGTTTGCTTGATTATATTTCAGTGACCCCTGATATACGACAACAAG  >  NC_000913/1530356‑1530643
                                                                                                                                            |                                                                                                                                                   
tAACAATTTGAAAAATGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGAGATGAGAGCAAGGGAGGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCAc                                                                                                                                             >  4:1011381/1‑149 (MQ=255)
  aCAATTTGAAAAATGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGa                                                                                                                                           >  2:1138325/1‑149 (MQ=255)
    aaTTTGAAAAATGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCa                                                                                                                                              >  1:1160756/1‑144 (MQ=255)
    aaTTTGAAAAATGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCa                                                                                                                                              <  2:1160756/144‑1 (MQ=255)
     aTTTGAAAAATGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGAttt                                                                                                                                        <  3:103310/149‑1 (MQ=255)
            aaaTGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGt                                                                                                                                                    >  2:1318051/1‑130 (MQ=255)
            aaaTGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGt                                                                                                                                                    <  1:1318051/130‑1 (MQ=255)
             aaTGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCa                                                                                                                                              >  3:129577/1‑135 (MQ=255)
             aaTGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCttt                                                                                                                                <  1:1138325/149‑1 (MQ=255)
             aaTGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAACACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCa                                                                                                                                              <  4:129577/135‑1 (MQ=255)
                    tttttGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTTATGTAAATCACGATTTTCATCTTTGCTTTaa                                                                                                                         <  3:1011381/149‑1 (MQ=255)
                    tttttGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATCGTGATTTACATCAcaa                                                                                                                                           <  3:656215/131‑3 (MQ=255)
                    tttttGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATCGTGATTTACATCAcaa                                                                                                                                           >  4:656215/1‑129 (MQ=255)
                            tGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGcc                                                                                                                     <  1:607657/145‑1 (MQ=255)
                            tGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGcc                                                                                                                     >  2:607657/1‑145 (MQ=255)
                                ttGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGc                                                                                                                      >  4:1487903/1‑140 (MQ=255)
                                ttGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGc                                                                                                                      <  3:1487903/140‑1 (MQ=255)
                                   gTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATc                                                                                                          >  2:1163333/1‑149 (MQ=255)
                                     aaaTGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATCGTGATTTACATCACAAtt                                                                                                                                         >  1:1860249/1‑116 (MQ=255)
                                     aaaTGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATCGTGATTTACATCACAAtt                                                                                                                                         <  2:1860249/116‑1 (MQ=255)
                                                   aacaacACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTgg                                                                                          >  4:290363/1‑149 (MQ=255)
                                                      aacaCCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAAt                                                                                       >  3:943960/1‑149 (MQ=255)
                                                           cAGAAAGAGAAAGAGATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCa                                                                                                                                              >  3:137988/1‑89 (MQ=255)
                                                           cAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCa                                                                                                                                              <  4:137988/89‑1 (MQ=255)
                                                            aGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGAtt                                                                                                                                         <  2:1716831/93‑1 (MQ=255)
                                                            aGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGAtt                                                                                                                                         >  1:1716831/1‑93 (MQ=255)
                                                               aaGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTaaaaa                                                                              <  1:1163333/149‑1 (MQ=255)
                                                               aaGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTaaaaa                                                                              <  4:943960/149‑1 (MQ=255)
                                                                        atatAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATaaaaaa                                                                     <  3:290363/149‑1 (MQ=255)
                                                                                tacatacaGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCttt                                                                                            >  2:928536/1‑118 (MQ=255)
                                                                                tacatacaGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCttt                                                                                            >  2:1150341/1‑118 (MQ=255)
                                                                                tacatacaGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCttt                                                                                            <  1:1150341/118‑1 (MQ=255)
                                                                                tacatacaGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCttt                                                                                            <  1:928536/118‑1 (MQ=255)
                                                                                    tacaGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATaa                                                                                     <  1:1780103/121‑1 (MQ=255)
                                                                                    tacaGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATaa                                                                                     >  2:1780103/1‑121 (MQ=255)
                                                                                     acaGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGa                                                        >  3:842206/1‑149 (MQ=255)
                                                                                        gAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAg                                                       <  4:457453/147‑1 (MQ=255)
                                                                                        gAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAg                                                       >  3:457453/1‑147 (MQ=255)
                                                                                               aTGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATc                                                                                                          <  4:225867/89‑1 (MQ=255)
                                                                                               aTGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATc                                                                                                          >  3:225867/1‑89 (MQ=255)
                                                                                                        aGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTg                                                                                           <  1:1166367/95‑1 (MQ=255)
                                                                                                        aGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTg                                                                                           <  1:1689965/95‑1 (MQ=255)
                                                                                                        aGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTg                                                                                           >  2:1689965/1‑95 (MQ=255)
                                                                                                        aGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTg                                                                                           >  2:1166367/1‑95 (MQ=255)
                                                                                                         gggACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAGTATTCAAAGTTTGCTTGAt                                    >  4:1580466/1‑149 (MQ=255)
                                                                                                           gACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAg                                                                    >  4:1834741/1‑115 (MQ=255)
                                                                                                           gACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAg                                                                    <  3:1834741/115‑1 (MQ=255)
                                                                                                                  cagggcaAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAGTATTCAAAGTTTGCTTGATTATATTTCa                           <  3:1580466/149‑1 (MQ=255)
                                                                                                                       caAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTg                                                                                           <  3:281969/80‑1 (MQ=255)
                                                                                                                       caAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTg                                                                                           >  4:281969/1‑80 (MQ=255)
                                                                                                                                  aaaTTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCa                                                             >  2:1185124/1‑99 (MQ=255)
                                                                                                                                  aaaTTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCa                                                             <  1:1185124/99‑1 (MQ=255)
                                                                                                                                        tgATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAGTATTCAAAGTTTg                                          <  3:872180/112‑1 (MQ=255)
                                                                                                                                        tgATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAGTATTCAAAGTTTg                                          >  4:872180/1‑112 (MQ=255)
                                                                                                                                           tGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAGTATTCAAAGTTTGCTTGATTATATTTCAGTGACCCCTGATATACGACAACAAg  >  2:1782394/1‑149 (MQ=255)
                                                                                                                                            gTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAGTATTCAAAGttt                                           <  1:245759/107‑1 (MQ=255)
                                                                                                                                            gTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAGTATTCAAAGttt                                           >  2:245759/1‑107 (MQ=255)
                                                                                                                                            |                                                                                                                                                   
TAACAATTTGAAAAATGAAGTTTTTGACTGGATTGGTAAATGGTCATAATGAACAACACCAGAAAGAGAAAAATATAAAATACATACAGAAAGACATGAGAGCAAGGGACGGGGCAGGGCAAGATCATGAAAATTGTGATGTAAATCACGATTTTCATCTTTGCTTTAACGCCTACAGGTGATCAAAATTTAACCTTTGGAATAACTAAAAAGATAAAAAAGGACGCCAGGTGAGTATTCAAAGTTTGCTTGATTATATTTCAGTGACCCCTGATATACGACAACAAG  >  NC_000913/1530356‑1530643

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑