Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,892,051 A→T 8.5% intergenic (‑144/+376) rot ← / ← USA300TCH1516_01749 HTH‑type transcriptional regulator rot/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,892,0510AT 8.5% 207.0 / 10.0 71intergenic (‑144/+376)rot/USA300TCH1516_01749HTH‑type transcriptional regulator rot/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (41/23);  new base T (4/2);  total (46/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.36e-01

CATCTCCCAATTAATAATCACATATTTAGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTTATATACAAAGAAAATATATCAAT  >  USA300TCH1516_ALE/1891914‑1892186
                                                                                                                                         |                                                                                                                                       
cATCTCCCAATTAATAATCCCATCTTTAGCCACTATACTAGTGTTAACAAAAAACAATACACTCCCTAGACTTGCATGTGCTAACTTATGCATAAAACTACAAGTGTGGTCATACTTTTTTTCTATTCAATTGTCAAAGt                                                                                                                                       <  2:196452/140‑1 (MQ=255)
        aaTTAATAATCACATATTTAGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCACTTGTCAAAGTTGAATaaa                                                                                                                               >  1:89776/1‑140 (MQ=255)
        aaTTAATAATCACATATTTAGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATaaa                                                                                                                               >  2:429296/1‑140 (MQ=255)
           tactaatCACATATTTGGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGAGTAAATCTTCTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAAtt                                                                                                                            <  1:326523/137‑1 (MQ=255)
            aataatCACATATTTAGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATGCAATTGTCAATGTTGAATAAAATTa                                                                                                                           >  1:455006/1‑140 (MQ=255)
               aatCACATATTTAGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAAt                                                                                                                        <  1:533324/140‑1 (MQ=255)
               aatCACATATTTAGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAAt                                                                                                                        <  2:267717/140‑1 (MQ=255)
                  cacaTATTTAGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAACTGTCAAAGTTGAATAAAATTAAATAAg                                                                                                                     <  1:494143/140‑1 (MQ=255)
                   ccaTATTTAGCTACTATACAAGTATTAACAAAGATCCCGCGGTTCGGAGATGTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAATGTTGAATAAAATTAAATAAGt                                                                                                                    <  2:737979/139‑1 (MQ=255)
                     atatTTAGCTACTATCCAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAATGTTGAATAAAATTAAATAAGtat                                                                                                                  <  1:42912/140‑1 (MQ=255)
                      tatTTAGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGtata                                                                                                                 <  2:174256/140‑1 (MQ=255)
                       atTTAGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATaa                                                                                                                <  1:130540/140‑1 (MQ=255)
                           aGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAAc                                                                                                            <  2:457618/140‑1 (MQ=255)
                           aGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAAc                                                                                                            >  1:193306/1‑140 (MQ=255)
                            tctactaTACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAAcc                                                                                                           <  2:723529/139‑1 (MQ=255)
                                 tataCAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAACCTTACTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATCATTATCAAAACCaaaaa                                                                                                      >  2:263528/1‑140 (MQ=255)
                                  ataCAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATAGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCaataat                                                                                                     >  1:733385/1‑140 (MQ=255)
                                    aCAAGTATTAACAAACATCCCAACAATCCCACAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAACGTTGAATAAAATTCAATAAGTATAAAAACCAATAATCa                                                                                                   >  1:226039/1‑140 (MQ=255)
                                    aCAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTCTTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAACACCCcataatta                                                                                                   >  1:586756/1‑138 (MQ=255)
                                    aCAAGTATTAACAAACATCCCAACAATCCCAAAACGTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAAtcatca                                                                                                   >  1:622327/1‑140 (MQ=255)
                                     cAAGTAGTAACAAACAGCCCATAAACCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCaa                                                                                                  <  2:226909/140‑1 (MQ=255)
                                              acaaacaTCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAATGTTAAATAAAATTAAATAAGTATAAAAACCAATAATTAATAGAGTTaa                                                                                         >  2:238685/1‑140 (MQ=255)
                                               caaacaTCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAat                                                                                        >  1:383058/1‑140 (MQ=255)
                                               caaacaTCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAat                                                                                        >  1:115522/1‑140 (MQ=255)
                                               caaacaTCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAat                                                                                        >  2:396667/1‑140 (MQ=255)
                                                  ccaTCCCACCACTCACATAAGTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATAtt                                                                                     <  2:298525/139‑1 (MQ=255)
                                                    aTCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTa                                                                                   >  1:220474/1‑140 (MQ=255)
                                                    aTCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTa                                                                                   >  2:641504/1‑140 (MQ=255)
                                                      cccAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGa                                                                                 >  1:537364/1‑140 (MQ=255)
                                                       ccAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGaa                                                                                >  2:580373/1‑140 (MQ=255)
                                                       ccAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCGTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATACAAAACAATAATCAATAGAGTTAATATTTAGaa                                                                                >  2:193134/1‑140 (MQ=255)
                                                        caagaaACCCAAGTCTTGGATGTGGTAACGTATGCATAAAAAGACAAGTGTAAATAAAATTGCTTTCTATTAAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGaaa                                                                               <  2:332049/140‑1 (MQ=255)
                                                        caacaaTCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCACTAGAATTCATTTTTCGaaa                                                                               >  2:533960/1‑140 (MQ=255)
                                                        caacaaTCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATCTTTAGaaa                                                                               >  1:92509/1‑140 (MQ=255)
                                                                    aaCTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGt                                                                   >  2:403007/1‑140 (MQ=255)
                                                                        tGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACAt                                                               <  2:89776/140‑1 (MQ=255)
                                                                           aTGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATaaa                                                            >  2:441776/1‑140 (MQ=255)
                                                                              tgCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACa                                                         >  2:753590/1‑140 (MQ=255)
                                                                                cTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACaaa                                                       >  1:367143/1‑140 (MQ=255)
                                                                                 tagtttATGCATAAAACTACAAATGTAAATAAACTTGCTTTCTATTCAATTATCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAAt                                                      <  2:449180/136‑1 (MQ=255)
                                                                                 tAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAATTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAAt                                                      <  1:350852/140‑1 (MQ=255)
                                                                                 tAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAGAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAAt                                                      <  2:385351/140‑1 (MQ=255)
                                                                                  aaCTTATGCATAGAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAACCACAAAAACCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATc                                                     <  1:324353/140‑1 (MQ=255)
                                                                                   aCTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGCGTTAATATTTAGAACTAAGATAATCGTACATAAAACAAATCa                                                    >  1:340395/1‑140 (MQ=255)
                                                                                     ttATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCAct                                                  <  1:89413/140‑1 (MQ=255)
                                                                                         gCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAGCTCActctgt                                              >  1:535417/1‑138 (MQ=255)
                                                                                         gCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTAt                                              >  1:428076/1‑140 (MQ=255)
                                                                                              aaaCTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATCTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACat                                         >  1:753916/1‑140 (MQ=255)
                                                                                              aaaCTACAAGTGTAAATAAACTTGCTTTCTATTAAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAACACAATAATCAATACAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACat                                         >  2:660914/1‑140 (MQ=255)
                                                                                                atgaCAATTGTAAATTAACTTGCTTTCTATTGAATTGTCAAAGTTAAATAAAATTAAATAAGTATAAAAACCAAGAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACatat                                       <  2:225957/137‑1 (MQ=255)
                                                                                                aCTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACatat                                       >  1:647872/1‑140 (MQ=255)
                                                                                                    cAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAAt                                   >  2:464364/1‑140 (MQ=255)
                                                                                                    cAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATAACTCTATTACATATTAAt                                   >  2:685979/1‑140 (MQ=255)
                                                                                                     aaGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAAtt                                  >  1:27892/1‑140 (MQ=255)
                                                                                                      aGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAAttt                                 >  1:584776/1‑140 (MQ=255)
                                                                                                       gtgtAAATAAACTTGCTTTCTATTCAATTGTCAATGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAAtttt                                >  1:463417/1‑140 (MQ=255)
                                                                                                       gtgtAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAAtttt                                >  1:141818/1‑140 (MQ=255)
                                                                                                              taaaCTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAAttt                         >  2:569436/1‑140 (MQ=255)
                                                                                                               aaaCTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTta                        >  1:470485/1‑140 (MQ=255)
                                                                                                                aaCTTGCTTTCTATTCAATTGTCAATGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACATGATAACATATTAATTTTATAATTtat                       >  2:120916/1‑140 (MQ=255)
                                                                                                                  cTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTtatat                     <  1:30928/140‑1 (MQ=255)
                                                                                                                  cTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTtatat                     <  1:475797/140‑1 (MQ=255)
                                                                                                                    tGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATCTTAGAATTTTTATAc                   >  1:271932/1‑140 (MQ=255)
                                                                                                                     gCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTTATATACa                  >  2:315724/1‑140 (MQ=255)
                                                                                                                       tttCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTTATATACaaa                >  1:75189/1‑140 (MQ=255)
                                                                                                                        ttCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTTATATACAAAg               >  2:655046/1‑140 (MQ=255)
                                                                                                                                  ttGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTTATATACAAAGAAAATATATc     >  1:350320/1‑140 (MQ=255)
                                                                                                                                  ttGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTTATATACAAAGAAAATATATc     <  1:539563/140‑1 (MQ=255)
                                                                                                                                    gTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTTATATACAAAGAAAATATATCaa   <  2:208516/140‑1 (MQ=255)
                                                                                                                                     tCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTTATATACAAAGAAAATATATCact  >  1:336151/1‑138 (MQ=255)
                                                                                                                                     tCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTTATATACAAAGAAAATATATCAat  >  1:668360/1‑140 (MQ=255)
                                                                                                                                         |                                                                                                                                       
CATCTCCCAATTAATAATCACATATTTAGCTACTATACAAGTATTAACAAACATCCCAACAATCCCAAAACTTGTATGTGCTAACTTATGCATAAAACTACAAGTGTAAATAAACTTGCTTTCTATTCAATTGTCAAAGTTGAATAAAATTAAATAAGTATAAAAACCAATAATCAATAGAGTTAATATTTAGAAATAAGATAATAGTACATAAAACAAATCACTCTATTACATATTAATTTTATAATTTATATACAAAGAAAATATATCAAT  >  USA300TCH1516_ALE/1891914‑1892186

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: