Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 9,085 G→A R685H (CGT→CAT)  gyrA → DNA gyrase subunit A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE9,0850GA78.3% 122.9 / 31.6 60R685H (CGT→CAT) gyrADNA gyrase subunit A
Reads supporting (aligned to +/- strand):  ref base G (7/6);  new base A (22/25);  total (29/31)
Fisher's exact test for biased strand distribution p-value = 7.58e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.18e-01

GTAAGATTGCGATTTCGTTCAGAGAAGATGATGAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACGCCAGTTAATGACT  >  USA300TCH1516_ALE/8947‑9225
                                                                                                                                          |                                                                                                                                            
gTAAGATTGCGATTTCGTTCAGAGAAGATGATGAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTa                                                                                                                                            >  1:514327/1‑141 (MQ=255)
  aaGATTGCGATTTCGTTCAGAGAAGATGATGAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTACa                                                                                                                                          >  2:49232/1‑141 (MQ=255)
  aaGATTGCGATTTCGTTCAGAGAAGATGATGAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACa                                                                                                                                          <  1:224002/141‑1 (MQ=255)
    gATTGCGATTTCGTTCAGAGAAGATGATGAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTACAGc                                                                                                                                        >  1:774859/1‑141 (MQ=255)
      ttGCGATTTCGTTCAGAGAAGATGATGAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCaa                                                                                                                                      <  1:741169/141‑1 (MQ=255)
           aTTTCGTTCAGAGAAGATGATGAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTTAATCAACATTACGTCCTTTAGGCCATACAGCAACGGgt                                                                                                                                 <  1:767341/141‑1 (MQ=255)
                  tCAGAGAAGATGATGAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAg                                                                                                                          >  1:93642/1‑141 (MQ=255)
                           atgatgAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTACAGCAACGGGTGTGAAAGGTATTacac                                                                                                                 <  1:576249/141‑1 (MQ=255)
                           atgatgAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTacac                                                                                                                 <  1:805230/141‑1 (MQ=255)
                              atgaGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTc                                                                                                              >  1:778410/1‑141 (MQ=255)
                                     aaTTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGtcacct                                                                                                       <  1:117467/141‑6 (MQ=255)
                                      aTTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGt                                                                                                      >  1:140541/1‑141 (MQ=255)
                                        tGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGa                                                                                                    <  2:15082/141‑1 (MQ=255)
                                          cAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACg                                                                                                  <  2:361584/141‑1 (MQ=255)
                                           aGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGa                                                                                                 >  1:50331/1‑141 (MQ=255)
                                                gCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTg                                                                                            >  1:652878/1‑141 (MQ=255)
                                                gCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTg                                                                                            <  2:401262/141‑1 (MQ=255)
                                                 cTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGt                                                                                           <  2:269533/141‑1 (MQ=255)
                                                    aaCAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGTAGGTGACGAAGTTGTAgg                                                                                        >  1:482008/1‑141 (MQ=255)
                                                      cAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGc                                                                                      >  1:302431/1‑141 (MQ=255)
                                                         gTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTg                                                                                   >  1:473891/1‑141 (MQ=255)
                                                         gTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTg                                                                                   >  1:790038/1‑141 (MQ=255)
                                                              cAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTa                                                                              >  1:465468/1‑141 (MQ=255)
                                                                agaagaTATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGc                                                                            <  1:463994/141‑1 (MQ=255)
                                                                agaagaTATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGc                                                                            <  2:301860/141‑1 (MQ=255)
                                                                        tCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTAGTAGGGCTTGATGTAGCTCATGCaa                                                                    >  1:705546/1‑141 (MQ=255)
                                                                         cTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCaaa                                                                   >  1:495530/1‑141 (MQ=255)
                                                                          ttGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAAc                                                                  >  1:309070/1‑141 (MQ=255)
                                                                          ttGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAAc                                                                  <  1:274204/141‑1 (MQ=255)
                                                                            gATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAg                                                                <  1:487699/141‑1 (MQ=255)
                                                                             aTTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAAcggt                                                               <  1:226090/141‑4 (MQ=255)
                                                                              ttGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAAAGGGTGTGAAAGGTATTACACTTAGTGTAGGTGATGAAGTTGTAGGGAATGATGTAGCTCATGCAAACAgtg                                                              >  1:197509/1‑141 (MQ=255)
                                                                                ggTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGtt                                                            >  2:395877/1‑141 (MQ=255)
                                                                                   aCATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTtgat                                                         >  2:35330/1‑141 (MQ=255)
                                                                                   aCATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTtgat                                                         <  1:950334/141‑1 (MQ=255)
                                                                                   aCATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGAGTGAAAGGTATTACACATCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTtgat                                                         >  1:290231/1‑141 (MQ=255)
                                                                                           tGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTAtt                                                 <  1:385956/141‑1 (MQ=255)
                                                                                            gCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATta                                                <  1:43685/141‑1 (MQ=255)
                                                                                              atcatTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATtagt                                              <  1:851571/141‑1 (MQ=255)
                                                                                              atcatTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATtagt                                              >  1:124544/1‑141 (MQ=255)
                                                                                                   tAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGTAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTa                                         <  2:302812/141‑1 (MQ=255)
                                                                                                   tAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTa                                         <  1:641870/141‑1 (MQ=255)
                                                                                                      ttCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTg                                      <  1:870115/141‑1 (MQ=255)
                                                                                                       tCGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGa                                     <  1:959309/141‑1 (MQ=255)
                                                                                                        cGATTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGAAACGGGTGTGCCAGGTATTAAACTACGTGAAAGTGAAGAAGTAGACGGAAACGACGTAGAAAAGGAAAAAAATGTTGGTGAAGTATTAGTAGTTACTGaa                                    >  2:271626/1‑141 (MQ=255)
                                                                                                          aTTCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGAGCGAAAGGTATTACACTTCGTGAAGGTGACGAGGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGCAGTAGTAGTAGTTACTGaaaa                                  >  2:107502/1‑141 (MQ=255)
                                                                                                           ttCCCTGAATCAACATTACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAAt                                 >  1:506560/1‑141 (MQ=255)
                                                                                                               cTGAATCAACATTACGTCCTTTAGGCCGTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGtt                             <  2:234014/141‑1 (MQ=255)
                                                                                                                   aTCAACATTACGTCCTTTAGGCCGTACAGCAACGGGTGTGAAATGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATgg                         <  2:203482/141‑1 (MQ=255)
                                                                                                                           tACGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCCCACACAAACAGCGCTGCTCAAGTCTTCGTCGTTACTGAAAATGGTTATGGTAAACGTa                 >  1:338255/1‑141 (MQ=255)
                                                                                                                            aCGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTAc                >  1:453787/1‑141 (MQ=255)
                                                                                                                            aCGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTAc                >  1:546555/1‑141 (MQ=255)
                                                                                                                             cGTCCTTTAGGCCGTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACg               <  1:226693/141‑1 (MQ=255)
                                                                                                                             cGTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACg               <  1:611681/141‑1 (MQ=255)
                                                                                                                              gTCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACGc              <  1:687399/141‑1 (MQ=255)
                                                                                                                               tCCTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACGcc             <  1:469507/141‑1 (MQ=255)
                                                                                                                                ccTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACGCCa            >  1:986849/1‑141 (MQ=255)
                                                                                                                                ccTTTAGGCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGGGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACGCCa            >  2:344210/1‑141 (MQ=255)
                                                                                                                                     aGGCCGTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACGCCAGTTaa       <  1:389991/141‑1 (MQ=255)
                                                                                                                                      ggCCATACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACGCCAGTTAAt      <  2:29119/141‑1 (MQ=255)
                                                                                                                                          gTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACGCCAGTTAATGACt  <  2:224737/141‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                            
GTAAGATTGCGATTTCGTTCAGAGAAGATGATGAGTTAATTGCAGTTCGCTTAACAAGTGGTCAAGAAGATATCTTGATTGGTACATCACATGCATCATTAATTCGATTCCCTGAATCAACATTACGTCCTTTAGGCCGTACAGCAACGGGTGTGAAAGGTATTACACTTCGTGAAGGTGACGAAGTTGTAGGGCTTGATGTAGCTCATGCAAACAGTGTTGATGAAGTATTAGTAGTTACTGAAAATGGTTATGGTAAACGTACGCCAGTTAATGACT  >  USA300TCH1516_ALE/8947‑9225

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