Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 480,295 2 bp→AA coding (13‑14/219 nt) hha ← hemolysin expression‑modulating protein Hha

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913480,2950GA91.3% 63.5 / ‑0.7 23P5F (CCT→TTT) hhahemolysin expression‑modulating protein Hha
Reads supporting (aligned to +/- strand):  ref base G (1/1);  new base A (9/12);  total (10/13)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01
*NC_000913480,2960GA86.4% 57.1 / ‑0.5 23P5F (CCT→TTT) hhahemolysin expression‑modulating protein Hha
Reads supporting (aligned to +/- strand):  ref base G (2/1);  new base A (7/12);  total (10/13)
Fisher's exact test for biased strand distribution p-value = 5.44e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01

ATAAACAGCCGGTTATAGCTCCGAAAGCGAATTATTTATTAGCGAATAAATTTCCATACTGAGGAAGGGATCTTGTCGTACAGTTTATTCATGGTCAA‑TTCGGCGAGGCGGT‑GATCTGCGGCTGAGTAAAATACCGCCAGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTATTGTCTTCATTATACTTAATTTTGTAATTAAGTGCG  >  NC_000913/480052‑480535
                                                                                                                                                                                                                                                     ||                                                                                                                                                                                                                                               
ataaACAGCCGGTTATAGCTCCGAAAGCGAATTATTTATTAGCGAATAAATTTCCATACTGAGGAAGGGATCTTGTCGTACAGTTTATTCATGGTCAA‑TTCGGCGAGGCGGT‑GATCTGCGGCTGAGTAAAATACCGCCAGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTc                                                                                                                                                                                                                                           >  1:298836/1‑251 (MQ=255)
             tataGCTCCGAAAGCGAATTATTTATTAGCGAATAAATTTCCATACTGAGGAAGGGATCTTGTCGTACAGTTTATTCATGGTCAA‑TTCGGCGAGGCGGT‑GAACTGCGGCTGAGAAAAATACCGCCAGGTCCTTATATGGTAATTCGTATTTATTTTTCTCGGTAACAAGCTCCAGGGTGTCAATTGTCTGGCAACGACGGTAACTCATTTACTAATCGGTTTTCTTTAAAACTTTTTCGGACATACTTCt                                                                                                                                                                                                                               >  2:314633/1‑250 (MQ=255)
                              attgttttttaGCGAAAAAATTTCCATACGGAGGAAGGGATCTGGGCTTATATTTTATTCATG‑CCAACTTCGGCGAGGCGGT‑GATCGTCGGCTGAGTAAAATACCGCCAGTGCATTATCTGATAATTCGTAGTTAGTTTTCTGGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGTCGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTaataat                                                                                                                                                                                                             <  2:279385/243‑1 (MQ=255)
                                     attaGCTAATAAATTTCCATACTGAGGAAGGTATTTTGTCTTTAAGTTTAGTCATGGTCAA‑TTCGGCGAGGCGTT‑GACTTGCGGCTGAGTAAAATTCCGCCAGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCATCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACa                                                                                                                                                                                                      <  1:322874/251‑1 (MQ=255)
                                     attaGCGAATAAATTTCCATACTGAGGAAGGGATCTTGTCGTACAGTTTATTCATGGTCAA‑TTCGGCGAGGCGGT‑GATCTGCGGCTGAGTAAAATACCGCCAGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAAc                                                                                                                                                                                                       <  1:579181/250‑1 (MQ=255)
                                         gCGAATAAATTTCCTTACTGAGGAAGGGATTTTGGCGTACATTTTATTCATGGTCAA‑TTCGGCGAGGCGGG‑GATCTTCGGCTGAGTAAAATACCGCCAGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGAt                                                                                                                                                                                                  <  2:312944/251‑1 (MQ=255)
                                           gAATAAATTTCCATATGGAGGAAGGGATCTTGTCGTACATTTTATTCATGGTCAA‑TTCGGCGAGGCGGT‑GATCTGCGGCTGAGTAAAATACCGCCAGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATaa                                                                                                                                                                                                <  1:571653/251‑1 (MQ=255)
                                                     ccATACTGAGGAAGGGATCTGGTCGTCTATTTTTTTCACGGTCAA‑TTCGGCGAGGCGGTAGA‑GTGCGTCTGATAAAAACACCGCCAGGTCATTATCTGATAATTCGTATTTATTTTGCTCGATAACACGCTCCAGCGTGGCAATTGTCTGGCAACGACGTAAGCGCATTAAATAATCGGTTTTCGTGAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAgg                                                                                                                                                                                       <  2:251360/250‑1 (MQ=255)
                                                                                                                      gtcggttgataaaaaaaCCGCCAGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGa                                                                                                                       <  2:515098/240‑1 (MQ=255)
                                                                                                                            tGAGTAAAATACCGCCAGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATcc                                                                                                                 >  1:129033/1‑251 (MQ=255)
                                                                                                                            ggattAAAATACCGCCAGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATcc                                                                                                                 <  1:160781/247‑1 (MQ=255)
                                                                                                                              aGTAAAATACCGCCAGTTAATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGGCGATTACCTGACTTCCGCCATTTCTGAAGATCCTg                                                                                                               >  1:139866/1‑251 (MQ=255)
                                                                                                                                            aGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTGCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCAt                                                                                                 <  1:363926/251‑1 (MQ=255)
                                                                                                                                                    aTCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTg                                                                                         >  2:289941/1‑251 (MQ=255)
                                                                                                                                                        gATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGa                                                                                        <  1:79539/248‑1 (MQ=255)
                                                                                                                                                            aTTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACAt                                                                                 <  1:14236/251‑1 (MQ=255)
                                                                                                                                                                  atttatttTTCTCGATAAACCGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGATTAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGgt                                                                           <  2:472131/251‑1 (MQ=255)
                                                                                                                                                                              cGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAAGACCATAACTACTGAACAACATAAAGGTGTCATCCAGat                                                                <  1:503994/250‑1 (MQ=255)
                                                                                                                                                                                    cacGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATtcgtc                                                         >  1:522927/1‑251 (MQ=255)
                                                                                                                                                                                                      ttGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCtt                                       >  1:66014/1‑251 (MQ=255)
                                                                                                                                                                                                                    cgTACACGCATTAAATAATCGGTTTTCGTTAAAAGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGAAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCAATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGATCTTATTGTCTTCAttct                         >  2:373355/1‑249 (MQ=255)
                                                                                                                                                                                                                                     atCGGTTTTCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTATTGTCTTCATTATACTTAATTTTGTAAtt         >  2:304715/1‑250 (MQ=255)
                                                                                                                                                                                                                                            ttCGTTAAAAATTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTATTGTCTTCATTATACTTAATTTTGTAATTAAGTGCg  >  1:465370/1‑250 (MQ=255)
                                                                                                                                                                                                                                                     ||                                                                                                                                                                                                                                               
ATAAACAGCCGGTTATAGCTCCGAAAGCGAATTATTTATTAGCGAATAAATTTCCATACTGAGGAAGGGATCTTGTCGTACAGTTTATTCATGGTCAA‑TTCGGCGAGGCGGT‑GATCTGCGGCTGAGTAAAATACCGCCAGTTCATTATCTGATAATTCGTATTTATTTTTCTCGATAACACGCTCCAGCGTGTCAATTGTCTGGCAACGACGTAAACGCATTAAATAATCGGTTTTCGTTAAAGGTTTTTCGGACATACTTCTACCTATGGTTGTAATAATTCTAACAAGATAAACTCGCAGGATTCTCTTTCGTCGCATTGACAAAACAACGGAATAGTCGATTACCTGACTTCCGCCATTTCTGAAGATCCTGCATATTAATACCATAACTACTGAACAACATAAAGGTGTCATCCAGATATTCGTCGATCTGCTCAATGAGCTTATTGTCTTCATTATACTTAATTTTGTAATTAAGTGCG  >  NC_000913/480052‑480535

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑