Predicted mutation
evidence seq id position mutation annotation gene description
RA CP000730 1,513,930 A→T L413F (TTA→TTT)  USA300HOU_1379 → hypothetical membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,513,9300AT97.0% 99.9 / ‑3.7 33L413F (TTA→TTT) USA300HOU_1379hypothetical membrane protein
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base T (18/14);  total (18/15)
Fisher's exact test for biased strand distribution p-value = 4.55e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.27e-01

TGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTA  >  CP000730/1513801‑1514063
                                                                                                                                 |                                                                                                                                     
ggaacttgctgCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAACGCGTCCAAAAAATACTGAAATACAAGTACCCCATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTACTGTATTAgg                                                                                                                            <  1:221295/131‑1 (MQ=255)
ggaacttgctgCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAgg                                                                                                                            <  1:221396/131‑1 (MQ=255)
    tgtatCACTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAGTAAAAGTACCCAAAAAAATAAAAAAACCAGCATCTATGTCACTCATAATATGTTTAATTGTATTAGGatca                                                                                                                        <  2:368550/141‑3 (MQ=255)
            tttATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGcc                                                                                                                <  2:101863/141‑1 (MQ=255)
            tttATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGcc                                                                                                                <  1:154636/141‑1 (MQ=255)
               attaGTAGCCACTGGCATGGGGTTTGGCTCTTGGAGAAAGCGTACAAAAAATACTCCAATAAAAGCACCACATCGCGGAAAAAAACCAGAAACTAGATCACTCATAACAGGTTTTATTGTATGTGGATTATTaagagcatg                                                                                                             >  2:192770/1‑134 (MQ=255)
                  gatgaccATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCattatt                                                                                                          <  2:344441/136‑1 (MQ=255)
                   gtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTAttt                                                                                                         >  2:90759/1‑141 (MQ=255)
                     agCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTgg                                                                                                       >  2:67598/1‑141 (MQ=255)
                           tGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATc                                                                                                 >  2:201690/1‑141 (MQ=255)
                               aTGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACtt                                                                                             >  2:343120/1‑141 (MQ=255)
                                  gggTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATc                                                                                          >  2:9419/1‑141 (MQ=255)
                                              tggacgaagagaaCAAAAAATAGAGCAATAAAAGTGCCAAATCGGGTAAAAAAACCAGCATTTATATCATGCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTAGCACTTATCCTTGTATTtata                                                                              <  2:291977/129‑1 (MQ=255)
                                                    aaGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGaa                                                                        >  1:146377/1‑141 (MQ=255)
                                                     aGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAt                                                                       >  2:103513/1‑141 (MQ=255)
                                                        gTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTaa                                                                    <  1:409717/141‑1 (MQ=255)
                                                              aaaaTACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATTCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAAtattat                                                              >  2:263570/1‑141 (MQ=255)
                                                                   aCTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATAtt                                                         >  2:215153/1‑141 (MQ=255)
                                                                      gCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTaaa                                                      <  1:63548/141‑1 (MQ=255)
                                                                                tACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTg                                            <  2:116796/141‑1 (MQ=255)
                                                                                 aCCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTgt                                           >  2:441371/1‑140 (MQ=255)
                                                                                  ccACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCt                                          >  2:280807/1‑141 (MQ=255)
                                                                                      aTCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAAc                                      >  2:125801/1‑141 (MQ=255)
                                                                                       tCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACa                                     <  1:252786/141‑1 (MQ=255)
                                                                                          tagtaaaaaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaata                                  <  2:175125/137‑1 (MQ=255)
                                                                                                   aCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAACTGAATTAATATTANATANTAAAGATCGTCGTGCTAAACAATAATGCACTTa                         <  1:342751/141‑1 (MQ=255)
                                                                                                       gCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGGTTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGATAAACAATAATGCACTTAAAGt                     >  2:225846/1‑141 (MQ=255)
                                                                                                         aTCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGttt                   <  1:223379/141‑1 (MQ=255)
                                                                                                                    tCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTAt                                                                                                  >  1:84392/1‑51 (MQ=255)
                                                                                                                    tCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTAt                                                                                                  <  2:84392/51‑1 (MQ=255)
                                                                                                                      ataataTGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGGTTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATTCACTTAAAGTTTTGAACTGACGaaa      >  2:377857/1‑141 (MQ=255)
                                                                                                                        aataTGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAtt    >  1:30597/1‑141 (MQ=255)
                                                                                                                          tatGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTa  >  2:257332/1‑141 (MQ=255)
                                                                                                                                 |                                                                                                                                     
TGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTA  >  CP000730/1513801‑1514063

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑