Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,483,375 G→T 76.2% V45F (GTC→TTC)  USA300HOU_2346 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,483,3750GT76.2% 24.4 / 4.9 20V45F (GTC→TTC) USA300HOU_2346hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (2/3);  new base T (11/4);  total (13/7)
Fisher's exact test for biased strand distribution p-value = 2.90e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TAACCTATGATGAAACTCAATTTATTTATCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAATTACGACTT  >  CP000730/2483237‑2483497
                                                                                                                                          |                                                                                                                          
tAACCTATGATGAAACTCAATTTATTTATCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTc                                                                                                                          >  1:225230/1‑141 (MQ=255)
 aaCCTATGATGAAACTCAATTTATTTATCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCg                                                                                                                         >  1:221843/1‑141 (MQ=255)
          tgaAACTCAATTTATTTATCAATGCAAATGAGACGGAGTCTTATATTGGTATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAAGCACATACATTATTCGGAACCATaa                                                                                                                >  2:203107/1‑140 (MQ=255)
               cTCAATTTATTTATCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGCCaaa                                                                                                           >  1:75349/1‑141 (MQ=255)
                          tatCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCatat                                                                                                >  2:243414/1‑141 (MQ=255)
                                                tCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGGCAAAGAAATCCATATCATTAATGTATCAGATGTtata                                                                          <  2:245737/141‑1 (MQ=255)
                                                  ttATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAAc                                                                        <  1:72403/141‑1 (MQ=255)
                                                                     acTAAAATGAATGATAACGTTCGAAGTACTATTAATGCAGTAAATGCTTTACACAAATCACATTCACTAGTCAGATACATGGACAAAGAAATCCATATCATTATTGTATCAGATGTTATAACATTCCAAGTTATTAATaaa                                                     <  2:185991/140‑1 (MQ=255)
                                                                      cTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATaaaa                                                    <  1:76086/141‑1 (MQ=255)
                                                                      cTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATaaaa                                                    >  2:222087/1‑141 (MQ=255)
                                                                          aatgaatgATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGt                                                >  1:223850/1‑141 (MQ=255)
                                                                                       gTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCCTTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACa                                   >  2:26421/1‑141 (MQ=255)
                                                                                       gTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAAAAGCCATTACa                                   >  2:26293/1‑141 (MQ=255)
                                                                                                      aaTGCAGTCAATGATTTAGACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGACGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAACCAAAAATTc                    >  2:32777/1‑141 (MQ=255)
                                                                                                       aTGCAGTCAAGTCTTTACACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCa                   <  2:225230/141‑1 (MQ=255)
                                                                                                                aTGATTTAGACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAAt          <  2:221843/141‑1 (MQ=255)
                                                                                                                      tAGACAAATCACATACATTATTCGGATACATAGCCAAAGAAATCCATATGATTAATGTATCAGATGTTATAACATTCGACGGTATTAATTAAAATGTAACGGCCAGTACCAGCAATGAAAAATTACACCTCAAAttccacc    >  2:131054/1‑136 (MQ=255)
                                                                                                                        gACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAATTACGACtt  >  1:104721/1‑141 (MQ=255)
                                                                                                                        gACAAATCACATACATTATTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAATTACAACtt  >  2:14878/1‑141 (MQ=255)
                                                                                                                        gACAAATCACATACAATATTAGGATAAATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAATTACGACtt  <  2:156713/141‑1 (MQ=255)
                                                                                                                                          |                                                                                                                          
TAACCTATGATGAAACTCAATTTATTTATCAATGCAAATGAGACGGAATCTTATATTGATATACATGCACCTAAAATGAATGATAACGTTCAAAGTATTATTAATGCAGTCAATGATTTAGACAAATCACATACATTAGTCGGATACATAGACAAAGAAATCCATATCATTAATGTATCAGATGTTATAACATTCCAAGTTATTAATAAAAATGTAACAGCCATTACAAGCAATCAAAAATTCAAACTAAAATTACGACTT  >  CP000730/2483237‑2483497

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: