Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,428,881 T→A 5.7% T256S (ACA→TCA) ‡ lytR_2 ← Transcriptional regulator LytR

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,428,8810TA 5.7% 842.5 / 29.1 246T256S (ACA→TCA) ‡lytR_2Transcriptional regulator LytR
Reads supporting (aligned to +/- strand):  ref base T (87/145);  new base A (8/6);  total (95/151)
Fisher's exact test for biased strand distribution p-value = 1.64e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.52e-01

Only 100 of 255 total aligned reads displayed.

CTTGACCACTCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCTTCAAGCAC  >  USA300TCH1516_ALE/2428791‑2428971
                                                                                          |                                                                                          
cTTGACCACTCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGt                                                                                            >  1:3061305/1‑91 (MQ=255)
cTTGACCACTCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGt                                                                                            >  2:3593828/1‑91 (MQ=255)
cTTGACCACTCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGt                                                                                            <  1:391213/91‑1 (MQ=255)
    aCCACTCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTa                                                                                        <  1:3569744/91‑1 (MQ=255)
     ccACTCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTaa                                                                                       <  2:751424/91‑1 (MQ=255)
      cACTCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAAc                                                                                      <  1:56316/91‑1 (MQ=255)
      cACTCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAAc                                                                                      <  1:1393589/91‑1 (MQ=255)
       aCTCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACa                                                                                     <  1:545039/91‑1 (MQ=255)
         tCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACatt                                                                                   >  2:2641801/1‑91 (MQ=255)
         tCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACatt                                                                                   <  1:2025130/91‑1 (MQ=255)
          cAATTGATGCTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACatta                                                                                  <  1:3546538/91‑1 (MQ=255)
           aaTTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACattat                                                                                 <  1:229612/91‑1 (MQ=255)
            aTTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACattatt                                                                                <  2:2821162/91‑1 (MQ=255)
            aTTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAAACAGATTTAACattagg                                                                                <  2:2230284/91‑3 (MQ=38)
             ttGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTAttt                                                                               <  2:1496974/91‑1 (MQ=255)
              tGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTAtttt                                                                              >  2:2997967/1‑91 (MQ=255)
               gATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTg                                                                             <  1:318090/91‑1 (MQ=255)
                aTGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGa                                                                            >  1:1116757/1‑91 (MQ=255)
                 tGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGaa                                                                           >  1:3597245/1‑91 (MQ=255)
                  gTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAAt                                                                          <  2:3815142/91‑1 (MQ=255)
                   tttATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAAtt                                                                         <  1:245436/91‑1 (MQ=255)
                    ttattaATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAAttt                                                                        <  1:913645/91‑1 (MQ=255)
                      attaATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATttca                                                                      <  2:840701/91‑1 (MQ=255)
                       ttaATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATttcat                                                                     <  2:789863/91‑1 (MQ=255)
                        taAACGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATttcatt                                                                    <  1:299122/91‑1 (MQ=255)
                         aaTCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATttcattc                                                                   >  2:4683/1‑91 (MQ=255)
                          aTCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATttcattca                                                                  <  2:3723776/91‑1 (MQ=255)
                           tCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTtcattcat                                                                 <  2:1602740/91‑1 (MQ=255)
                            cGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTcattcatt                                                                >  1:3259714/1‑91 (MQ=255)
                             gtgtCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTa                                                               >  2:3601998/1‑91 (MQ=255)
                             gtgtCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTa                                                               <  1:2564083/91‑1 (MQ=255)
                               gtCATTAGCATCTTTATTATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGa                                                             >  2:513566/1‑91 (MQ=255)
                                tCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGAc                                                            <  2:2405200/91‑1 (MQ=255)
                                tCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGAc                                                            <  2:3485359/91‑1 (MQ=255)
                                tCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGAc                                                            <  1:1302959/91‑1 (MQ=255)
                                 cATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACt                                                           <  2:1272498/91‑1 (MQ=255)
                                  aTTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTa                                                          <  1:866116/91‑1 (MQ=255)
                                   ttAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTAt                                                         <  1:44821/91‑1 (MQ=255)
                                   ttAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTAt                                                         >  1:1463836/1‑91 (MQ=255)
                                   ttAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTAt                                                         <  2:2007816/91‑1 (MQ=255)
                                   ttAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTAt                                                         <  1:44694/91‑1 (MQ=255)
                                   ttAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTAt                                                         >  1:2977651/1‑91 (MQ=255)
                                    tAGCATCTTTAGAATTGCTTCTACGCGTATTTGAATCATCTCGTGTTAAATCTGTTTTAACAGTATTTTAAAGTTCATTCATTAGACTAtt                                                        <  2:2544098/91‑1 (MQ=255)
                                     aGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTa                                                       <  1:13837/91‑1 (MQ=255)
                                        aTCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTaaaa                                                    >  2:339795/1‑91 (MQ=255)
                                         tCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAAt                                                   <  2:1349855/91‑1 (MQ=255)
                                          cTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAAtg                                                  >  2:201200/1‑91 (MQ=255)
                                          cTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAAtg                                                  <  2:2841082/91‑1 (MQ=255)
                                            ttATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAAtgtg                                                <  1:1771218/91‑1 (MQ=255)
                                             tataATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATgtgt                                               <  2:32432/91‑1 (MQ=255)
                                             tataATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATgtgt                                               <  1:125332/91‑1 (MQ=255)
                                              ataATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTa                                              <  1:624117/91‑1 (MQ=255)
                                                aaTTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAAt                                            <  2:2935721/91‑1 (MQ=255)
                                                  ttGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTTACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCg                                          <  2:1118207/91‑1 (MQ=255)
                                                  ttGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCg                                          <  1:3809070/91‑1 (MQ=255)
                                                    gCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCgat                                        <  1:269141/91‑1 (MQ=255)
                                                    gCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCgat                                        <  1:278642/91‑1 (MQ=255)
                                                    gCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCgat                                        >  1:1892499/1‑91 (MQ=255)
                                                     cTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCgatg                                       <  2:290365/91‑1 (MQ=255)
                                                     cTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCgatg                                       <  1:1219986/91‑1 (MQ=255)
                                                       agtAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCgatgat                                     >  2:2775454/3‑91 (MQ=255)
                                                          aaTCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATggg                                  >  2:1445551/1‑91 (MQ=255)
                                                           aTCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGc                                 >  1:823822/1‑91 (MQ=255)
                                                           aTCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGc                                 >  2:2093105/1‑91 (MQ=255)
                                                            tCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCt                                <  1:2929416/91‑1 (MQ=255)
                                                             cGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCtt                               >  2:2073806/1‑91 (MQ=255)
                                                             cGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCtt                               <  1:1249465/91‑1 (MQ=255)
                                                              gTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTg                              <  2:211646/91‑1 (MQ=255)
                                                              gTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTg                              <  2:1376044/91‑1 (MQ=255)
                                                              gTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTg                              >  2:2486264/1‑91 (MQ=255)
                                                              gTATTCAAATCACCTAATGTTAAATCAGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTg                              >  2:2244062/1‑91 (MQ=255)
                                                               tATTCAAATCACCTAATGTTAAGTCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGc                             <  2:2394032/91‑1 (MQ=255)
                                                               tATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGc                             >  1:1550130/1‑91 (MQ=255)
                                                                aTTCAAATCACCTAATGTTAAATCTGTTTTCACATTATTTTGAATTTCATTCATTAGCCTATTAAAATGTGTAATCGCTGATGGGCTTGCa                            >  2:2262348/1‑91 (MQ=255)
                                                                  tCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAAt                          >  1:1644879/1‑91 (MQ=255)
                                                                  tCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAAt                          <  2:1874707/91‑1 (MQ=255)
                                                                  tCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAAt                          <  2:2286137/91‑1 (MQ=255)
                                                                  tCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAAt                          >  2:2973278/1‑91 (MQ=255)
                                                                   cAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATc                         <  2:1224956/91‑1 (MQ=255)
                                                                   cAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATc                         >  2:3262514/1‑91 (MQ=255)
                                                                    aaaTCACCTAATGTTAAATCTGTTTTAACATTATTTTGACTTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCt                        >  2:680744/1‑91 (MQ=255)
                                                                    aaaTCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCt                        >  1:103299/1‑91 (MQ=255)
                                                                    aaaTCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCt                        <  1:3292486/91‑1 (MQ=255)
                                                                        cACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTAtt                    >  1:3628142/1‑91 (MQ=255)
                                                                        cACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTAtt                    >  1:3740676/1‑91 (MQ=255)
                                                                        aaaatAATGTTAAAACAGATTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTAtt                    >  2:1115094/5‑91 (MQ=38)
                                                                          ccTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTgg                  <  1:685390/91‑1 (MQ=255)
                                                                          ccTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCACTCATTAGACTATTAACATGTGTAATCGATGATGGGCTTGCAATCTCATTgg                  >  2:2457523/1‑91 (MQ=255)
                                                                           cTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGc                 <  2:3117347/91‑1 (MQ=255)
                                                                           cTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGc                 >  1:2282341/1‑91 (MQ=255)
                                                                           cTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGc                 <  1:351608/91‑1 (MQ=255)
                                                                                   aaaTCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCtt         >  1:3115816/1‑91 (MQ=255)
                                                                                   aaaTCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCtt         >  1:292347/1‑91 (MQ=255)
                                                                                    aaTCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCTTc        >  1:1437137/1‑91 (MQ=255)
                                                                                     aTCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCTTCa       >  2:2844835/1‑91 (MQ=255)
                                                                                     aTCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCTTCa       <  1:3090984/91‑1 (MQ=255)
                                                                                      tCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCTTCaa      >  2:169169/1‑91 (MQ=255)
                                                                                        tGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCTTCAAGc    <  1:230094/91‑1 (MQ=255)
                                                                                        tGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCTTCAAGc    <  1:3235656/91‑1 (MQ=255)
                                                                                          ttttAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCTTCAAGcac  >  1:3422093/1‑91 (MQ=255)
                                                                                          |                                                                                          
CTTGACCACTCAATTGATGTTTATTAATCGTGTCATTAGCATCTTTATAATTGCTTCTAATCGTATTCAAATCACCTAATGTTAAATCTGTTTTAACATTATTTTGAATTTCATTCATTAGACTATTAAAATGTGTAATCGATGATGGGCTTGCAATCTTATTGGCCATCGCTTCAAGCAC  >  USA300TCH1516_ALE/2428791‑2428971

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