Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 618,489 T→C 7.3% D1197D (GAT→GAC sdrD → Serine‑aspartate repeat‑containing protein D

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE618,4890TC 7.3% 906.4 / 12.6 384D1197D (GAT→GACsdrDSerine‑aspartate repeat‑containing protein D
Reads supporting (aligned to +/- strand):  ref base T (152/188);  new base C (32/3);  total (189/195)
Fisher's exact test for biased strand distribution p-value = 4.30e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 397 total aligned reads displayed.

GATTCAGATTCAGACAGCGATTCAGATTCAGATAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCGATTCAGACTCAGATAGCGACTCAGATTCAGATAG  >  USA300TCH1516_ALE/618349‑618629
                                                                                                                                            |                                                                                                                                              
 attcatattcagATTTTGATTCAGATTTAGATGGTGATTTAGATTCTGATAGTGAATCAGATATTGATTCAGAATCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGAtt                                                                                                                                               <  2:2228211/141‑1 (MQ=17)
      gatgcagaCTGAGATTCAGATGCAGATAGCGATTCAGATTCAGATAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑c                                                                                                                                        <  2:3528243/141‑1 (MQ=18)
      gaagcagaCAGCGATTCAGAATCAGATAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑c                                                                                                                                        <  1:4052954/137‑1 (MQ=255)
        atcagaCAGCGACGCCGAAACAGATAGTGATTCATAGACAGACAGCGACTCAGATAGTGAGTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTc                                                                                                                                      <  1:692777/140‑1 (MQ=17)
         tcagaCAGCGATTCAGATTCAGATAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCa                                                                                                                                     >  1:1209099/1‑141 (MQ=255)
         tcagaCAGCGATTCAGATTCAGATAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCa                                                                                                                                     >  1:2675870/1‑141 (MQ=255)
         tcagaCAGCGATTCAGATTCAGATAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCa                                                                                                                                     >  2:4204217/1‑141 (MQ=255)
          cagaCAGCGATTCAGATTCAGATAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAg                                                                                                                                    >  1:144182/1‑141 (MQ=255)
          cagaCAGCGATTCAGATTCAGATAGCGATTCAGATTCAGACAGAGACTCAGATAGTGAGTCAGACTCAGATAGCGACTCAGACTCAGACAGCGACTCAGATTCAGAGAGCCACACAGACTCAGAGAGTGACACAGA‑‑CTCAg                                                                                                                                    >  2:3231310/1‑141 (MQ=18)
           agaCAGAGAAACAGATGACGATAGTGATTCAGAATTAGACAATGCATCATACAGAGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGa                                                                                                                                   <  2:2535368/141‑1 (MQ=14)
             aCAGCGATTCAGATTCAGATAGCGATTCAGATTCAGACAGAGACTCAGATAGAGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAATGAACCAGA‑‑CTCAggtt                                                                                                                                 >  2:4235624/1‑138 (MQ=18)
               agagatacaaattgaGATAGAGATTCAGATTCAGACAGAGAATCAGATAATGATACAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGc                                                                                                                               <  2:3396597/138‑1 (MQ=18)
                gCGAGTCAGAGTGAGATAGAGATGCAGACACAGATAGAGACTCAGACAGTGATAAAGATTCAGATAGCGACTCAGATTCAGATAGCGACTCAGATTCAGACAGAGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCg                                                                                                                              <  2:1058467/141‑1 (MQ=17)
                   attcagattcagATAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCTACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACt                                                                                                                           <  1:171652/141‑1 (MQ=255)
                    ttcagattcagaTAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTc                                                                                                                          >  1:2341178/1‑141 (MQ=255)
                    ttcagatgtagaTAGAGATTCTGATGCAGATAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTc                                                                                                                          <  2:2180153/141‑1 (MQ=17)
                             agatAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcaga                                                                                                                 >  1:2401367/1‑141 (MQ=255)
                             agatAGCGATTCAGAATCAGACAGTGAATAAGAAAGGGAAGAAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcaga                                                                                                                 <  2:2027014/141‑1 (MQ=17)
                              gatAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagac                                                                                                                >  1:3141146/1‑141 (MQ=255)
                              gatAGCGATTCAGACTCAGATAGAGACTCAGATAGTGACTCAGACTCAGATACCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGGCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagac                                                                                                                <  2:2815096/141‑1 (MQ=17)
                                tAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGATCGCGACTCAAACTCAAAAAAGGCCTCCGA‑‑CTCAGATAGCGACTCAGACtcagccac                                                                                                              >  2:2659086/1‑140 (MQ=17)
                                   cGATTCAGAGTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcga                                                                                                           <  1:334737/141‑1 (MQ=255)
                                      ttcagatccagaCAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactc                                                                                                        <  1:3629706/141‑1 (MQ=255)
                                      cacagatacagaCAGAGATACACAGAGAGATCCAGACTCAACTCGGGACTCAGATTCAGATAGCGACACGGAGTCAGACAGAGACACAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactc                                                                                                        <  2:1511664/139‑1 (MQ=14)
                                        cctattcagaTATTGGCTCAGAGTGTGATTGAGAATCAGATAGCGATGCAGATTCAGATATCGACTCAGATTCAGACAGCGACTGAGACTCACACAGTAATTCAGA‑‑CTCTGATAGCGACTCAGATtcagacagcgactcag                                                                                                      <  2:394389/138‑1 (MQ=9)
                                        cagattcagaCAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGCCTAAGATTCAGACAGCGACTCAGATTCAGATAGCGATTCAGA‑‑ATTCGACAGCGAGCCACATtcagaaagagactcag                                                                                                      >  2:68323/1‑141 (MQ=17)
                                        cagactcagaCAGAGATTCAGATAGTGACGCAGACTCAGATACAGATTCAGATTCAGACACAGACTGAGAGTCAGACACAGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcag                                                                                                      <  2:1332429/141‑1 (MQ=14)
                                          gattcagaTAGAGATTCAGATGGTGATTAAGATGCAGATAGTGACTCAGATTCAGACAGCGATTCAGATTCAGACTGCGATACAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtctgacagcgactcagac                                                                                                    <  2:972077/141‑1 (MQ=17)
                                          gattcagaCAGAGACTCAGATAGTGAATCAGCCTCAGATAGCGACCGTTACCCGGTCGCGGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagac                                                                                                    <  1:3211292/141‑1 (MQ=17)
                                          gactcagaGAGAGACTGAGAGACTGATACAGACTCAGATAGCGACACAGAGTCAGACAGCGATTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGTGACTCAGATtcagacagcgactcagac                                                                                                    <  2:185851/138‑1 (MQ=17)
                                           attcagaCAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagact                                                                                                   >  1:253448/1‑141 (MQ=255)
                                           attcagaCAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagact                                                                                                   >  1:2286546/1‑141 (MQ=255)
                                             tcagaCTGAGACTCAGATTGTGATTGAGACTCAGATTGCGACTCAGATTCAGACAGCGAATCAGATTCAGACAGCGACCCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactca                                                                                                 <  2:2310631/141‑1 (MQ=14)
                                              cagacagaGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTGAGACTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcag                                                                                                >  2:4046365/1‑141 (MQ=255)
                                              cagacagaGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcaggcagcgactccgactcag                                                                                                >  1:2047612/1‑141 (MQ=255)
                                               agatagaGACTCAGACAGTGAATGAGATTCAGAGGGTGACTGAGATTCAGACAGAGACTCAGATTCAGACAGCGACACAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcaga                                                                                               <  2:329699/141‑1 (MQ=14)
                                                gcgagagACTCAGACAGGGACTCCGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcagac                                                                                              <  1:3409384/138‑1 (MQ=14)
                                                  cagaaactcagacAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcagacag                                                                                            <  1:1509050‑M2/128‑1 (MQ=255)
                                                  cagaGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcagacag                                                                                            >  1:2154160/1‑141 (MQ=255)
                                                  aagagACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcagacag                                                                                            <  1:738521/140‑1 (MQ=255)
                                                  aaaagaCTGAGATAGAGAATGAGACTCAGATAGCGACGCAGATTCAGAAAGAGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcagacag                                                                                            <  2:532592/138‑1 (MQ=14)
                                                     agaCTCAGATAGTGATTAAGAATAAGATGGCTACTGAGATTCAGACAGCGACTCCGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcagacagcga                                                                                         <  1:1863774/141‑1 (MQ=17)
                                                        cTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACACCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcagacagcgactc                                                                                      <  1:4251412/141‑1 (MQ=255)
                                                             aTAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTcagacagcgactcagactcagacagcgactcagact                                                                                 <  1:3337126/141‑1 (MQ=255)
                                                              tAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCagacagcgactcagactcagacagcgactcagactc                                                                                <  1:1291161/141‑1 (MQ=255)
                                                                gTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGacagcgactcagactcagacagcgactcagactcag                                                                              <  1:2112597/141‑1 (MQ=255)
                                                                  gATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGACTCAGACAGCGACTCAGACCCAGAGAGCGGCTCAGACTCAGAt                                                                            >  1:2760348/1‑141 (MQ=255)
                                                                      cAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGAAAGCAACTCAGACTCAGAAATTGACGCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTg                                                                        >  1:4391769/1‑141 (MQ=14)
                                                                      cAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGAAAGCGACTCAGA‑‑CTCAGATAGCGACTCAGACTCAGAAAGCGACACATACTCAGAGAGCGACCGATACTCAGACAgcg                                                                        >  2:1119405/1‑139 (MQ=11)
                                                                         aCTCAGATGGCGACACAGATGCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACt                                                                     <  2:1679308/141‑1 (MQ=255)
                                                                          gtCAGATTGCGCGTCAGATTCAGACTGCGTCGCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACtc                                                                    <  2:144182/140‑1 (MQ=17)
                                                                          cTCAGATAGCGACACCGATTCAGACGGCGACACCGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACtc                                                                    <  1:3758017/141‑1 (MQ=17)
                                                                           tCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCACTGGAGTTCAGAGGCGCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACtca                                                                   <  1:1025644/141‑1 (MQ=17)
                                                                            cAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCCGACTCAGACAGCGACTCAGACTCAGATAGTGACtcag                                                                  <  1:1912839/141‑1 (MQ=255)
                                                                            cAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACtcag                                                                  >  1:2629906/1‑141 (MQ=255)
                                                                             aGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACtaaga                                                                 >  1:941907/1‑141 (MQ=255)
                                                                              gATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACtcagat                                                                >  1:860969/1‑141 (MQ=255)
                                                                                aagcgactcagattcagacagcgacgcagattcagacAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACtcagattc                                                              <  1:2479974/140‑1 (MQ=255)
                                                                                 agcgactcagataccgacagtgacgcagattcagacAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACtcagattca                                                             <  2:2924484/141‑1 (MQ=255)
                                                                                   cgattcagactcagatagcgactcagactcagacagCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACtcagattcaga                                                           <  1:3998246/141‑1 (MQ=255)
                                                                                   cgactcagattcagacagcgactcagattcagacagCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGAt                                                                                                                                  <  1:3793672/70‑1 (MQ=255)
                                                                                      ctcagattcagacagcgactcagattcagacagcgcCTCAGTTCTAGTTAGTGATTCAGC‑‑TTCAGAAAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAg                                                        >  1:3249368/1‑141 (MQ=14)
                                                                                      ctcagattcagacagcgactcagattcagacagcaaCTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAg                                                        >  1:3044900/1‑141 (MQ=255)
                                                                                       tcagactcagacagtgactcagattcagacagcgacTCAGACGCAGATAGTGATTCAGA‑‑CTCAGCTACGGCGTGGGCGGGATAGAGCCACTTCGGTTCTGACAGTGTCTCAGACTCAGATAGTGACTCAGATTCAGATAGc                                                       <  1:1043853/141‑1 (MQ=9)
                                                                                         agattcagacagcgactcagattcagacagcgactcAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGa                                                     <  1:3296950/141‑1 (MQ=255)
                                                                                          gattcagacagcgactcagattcagacagcgactcaGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGAc                                                    >  1:2984339/1‑141 (MQ=255)
                                                                                          gattcagacagcgactcagattcagacagagactcaGACTCAGATAGTGACTCAGA‑‑CTCAGATAGCGACTCAGACTCAGAGAGCGACTCAGACACAGAGAGCGACTCAGACACAGACAGCGAGTCAGGCACAGAGAGCGAc                                                    >  2:309332/1‑141 (MQ=11)
                                                                                           attcagacagcgactcagattcagacagcgactcagACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGACTCAGATAGCGACt                                                   >  1:4112738/1‑141 (MQ=255)
                                                                                           attcagacagcgactcagattcagacagcgactcagACTCAGATAGCGACTCAGA‑‑CTCAGATAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGCGACTCAGACTCAGATAGAGACTCGGACTCAGATAGCGAca                                                   >  2:384308/1‑140 (MQ=11)
                                                                                            ttcagacagcgactcagattcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTc                                                  <  1:1153223/141‑1 (MQ=255)
                                                                                            ttcagacagcgactcagattcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTc                                                  <  1:3712634/141‑1 (MQ=255)
                                                                                             tcagacagcgactcagattcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCa                                                 >  1:2826081/1‑141 (MQ=255)
                                                                                              cagacagcgactcagattcagacagcgactcagaCTCAGATAGTGACTCAGA‑‑CTCAGATAGCGACTCAGACTCAGACAGCGATAGAGACTCAGACACCGACGCAGACTAAGAGGGCGAGGCAGACACAGATAGCGAcagag                                                >  2:2839328/1‑137 (MQ=11)
                                                                                                gacagcgactcagattcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGAc                                                                                                                            >  1:639499/1‑63 (MQ=255)
                                                                                                gacagcgactcagattcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGAt                                              <  1:3554644/141‑1 (MQ=255)
                                                                                                gacagcgactcagattcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGAt                                              >  1:2445018/1‑141 (MQ=255)
                                                                                                gacagcgactcagattcagacagcgactcagaCTCAGATAGTGACTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGCCTCAGACTCAGACAGCGACTCAGACTCAGATAACCACTCACAATCAGAGAGCAACTCAGaa                                              >  2:160470/1‑140 (MQ=14)
                                                                                                     cgactcatattcaggcatcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGAAAGCGACTCAGAATCAGACAGCGACTCAGACACAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGa                                         <  1:344711/141‑1 (MQ=17)
                                                                                                       actcagattcagacagcgactcagaCTCAGATAGTGATTc                                                                                                                                              >  1:1407588/1‑40 (MQ=40)
                                                                                                        ctcagattcagacagcgactcagaCTCAGATAGTGATTc                                                                                                                                              >  2:3679137/1‑39 (MQ=255)
                                                                                                         tcagattcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTc                                                                                                                          >  1:3961624/1‑56 (MQ=38)
                                                                                                         tcagattcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATGCGGACAGc                                     >  1:195340/1‑141 (MQ=255)
                                                                                                          cagattcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCg                                    <  1:562954/141‑1 (MQ=255)
                                                                                                             attcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGACTCAGATAGCGACTCAGATTCAGACAGCGAtt                                 >  1:1578392/1‑141 (MQ=255)
                                                                                                              ttcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCGATTc                                <  1:4204217/141‑1 (MQ=255)
                                                                                                               tcagacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCGATTCa                               <  1:1059056/141‑1 (MQ=255)
                                                                                                                 agacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCGATTCAGa                             <  1:2600024/141‑1 (MQ=255)
                                                                                                                 agacagcgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGAGACTCAGATTCAGACAGCGACACAGACTCAGACAGCGACTCAGACTCACAGAGGGCCACGGATTCACATAACGACACAGACTCGGAAAGCGAGTCAGa                             >  2:856971/1‑141 (MQ=17)
                                                                                                                       cgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcagacagcgactc                                                                                      <  1:909776/78‑1 (MQ=255)
                                                                                                                       cgactcagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATtcagacagcgactcagactcagacagcgactc                                                                                      >  2:909776/1‑78 (MQ=255)
                                                                                                                       cgacacagaCTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTc                                                                                                                          <  2:2718456/42‑1 (MQ=255)
                                                                                                                        gactcagactcaGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTGAGACTCAGACAGCGACTCAGACTCAGACAGTGACTCAGATTCAGATAGAAACTCAAACACGCACAGCGATTCAGACTGAGAt                      >  2:2380601/1‑141 (MQ=14)
                                                                                                                          ctcagactcagaTAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCGATTCAGACTCAGATAg                    <  1:3919933/141‑1 (MQ=255)
                                                                                                                          cacagactcagaTAGGGATACAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCGATTCAGACTCAGATAg                    <  2:432297/139‑1 (MQ=255)
                                                                                                                              gactcagaTAGCGATTCAGA‑‑CTCAGCTTCCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCGATTCAGACTCAGATAGCGAc                <  2:1209099/141‑1 (MQ=14)
                                                                                                                                ctcagaTAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCTATTCAGACTCAGATAGCGACtc              <  1:1615592/141‑1 (MQ=255)
                                                                                                                                ctcagaTAGTGACTCAGA‑‑CTCAGATAGCGACTCAGACTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACGCAGAGTCATATAGCGACTCAGATTCGGACAGCGATTCAGACTCAGATAGCGACtc              <  1:2213004/141‑1 (MQ=14)
                                                                                                                                   agaTAGTGATTCAGA‑‑AGAAGATAGCGACGCAGATTCAGACAGTGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCGATTCAGACTCAGATAGCGACtcaga           <  2:3010551/141‑1 (MQ=14)
                                                                                                                                       aGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGGCAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATGGTGACTCAGATTCAGATAGCGACTCAGGTTCGGACAGCGATTCAGACTCAGCCAGCGACgcagaatca       >  1:809572/1‑141 (MQ=14)
                                                                                                                                            ttCAGA‑‑CTCAGATAGCCACTCAAATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCGATTCAGACTCAGATAGCGACTCAGATTCAGATAg  <  1:4305943/141‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                              
GATTCAGATTCAGACAGCGATTCAGATTCAGATAGCGATTCAGATTCAGACAGAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGCGACTCAGACTCAGATAGTGATTCAGA‑‑CTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGACTCAGATTCAGATAGCGACTCAGATTCGGACAGCGATTCAGACTCAGATAGCGACTCAGATTCAGATAG  >  USA300TCH1516_ALE/618349‑618629

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: