Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 618,756 T→C 7.3% S1286S (AGT→AGC sdrD → Serine‑aspartate repeat‑containing protein D

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE618,7560TC 7.3% 325.3 / 2.6 129S1286S (AGT→AGCsdrDSerine‑aspartate repeat‑containing protein D
Reads supporting (aligned to +/- strand):  ref base T (66/51);  new base C (3/8);  total (70/59)
Fisher's exact test for biased strand distribution p-value = 1.11e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 129 total aligned reads displayed.

AGATTCAGATAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTAAACCAATGAGTA  >  USA300TCH1516_ALE/618618‑618895
                                                                                                                                          |                                                                                                                                           
agtttcagatAGCGATTCAGACTCAGTGAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGa                                                                                                                                           <  1:430144/138‑1 (MQ=255)
  attcagatAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGTGAtt                                                                                                                                         >  2:163426/1‑141 (MQ=255)
   ttcagatAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGGTTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTc                                                                                                                                        >  1:102461/1‑141 (MQ=255)
   ttcagatAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTc                                                                                                                                        >  3:36708/1‑141 (MQ=255)
   ttcagatAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTc                                                                                                                                        >  1:145195/1‑141 (MQ=255)
   ttcagatAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTc                                                                                                                                        <  3:143442/141‑1 (MQ=255)
   ttcagagAGCGAGTCGGACTCATATAGCGACGCAGACTCTGATACTTACTCATACGCATATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTc                                                                                                                                        <  1:98832/141‑1 (MQ=18)
    tccgatAGCGATTCTGTCTCAGACAGCGTCTCAGACTCAGATTGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCa                                                                                                                                       <  2:412244/138‑1 (MQ=18)
    tcagatAGCGATTCGGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGACTCAGATCGCGACACAGATTCAGACAGCGACTCAGATTCCGATTGCGACTCTGTTCGAGACAGCCACACAGACCCAGATAGGGacaca                                                                                                                                       >  4:234851/1‑137 (MQ=14)
    tcagatAGCGATTCGGAATCAGATAGCGATTCAGACTCAGATAGTGATTCAGACTCAGATAGCGACACAGATTCAGACAGCGACTCAGATACGGAGAGAGAATCAGATTAAAATAGGGACTCAGAATCGGATAATGaataa                                                                                                                                       >  2:638635/1‑137 (MQ=14)
    tcagatAGCGATTCGGAATCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCCGATAGCGACTCAGATTCAGACAGCGACTGAGACTCGGATAGTGATTCa                                                                                                                                       >  4:225351/1‑141 (MQ=255)
     cagatAGCGATTCGGACTCAGATGGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAg                                                                                                                                      <  3:368720/141‑1 (MQ=255)
     cagatAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAg                                                                                                                                      >  1:345556/1‑141 (MQ=255)
      agatAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGa                                                                                                                                     <  1:65815/141‑1 (MQ=255)
       gatAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGAc                                                                                                                                    >  1:947521/1‑141 (MQ=255)
       gatAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGAc                                                                                                                                    <  1:86090/141‑1 (MQ=255)
         tAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTc                                                                                                                                  >  1:227719/1‑141 (MQ=255)
         tAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTc                                                                                                                                  <  1:151996/141‑1 (MQ=255)
         tAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTAGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTc                                                                                                                                  >  3:243026/1‑141 (MQ=255)
          accGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGACTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCa                                                                                                                                 <  2:229790/139‑1 (MQ=255)
           gCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAg                                                                                                                                >  3:295887/1‑141 (MQ=255)
            cGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGa                                                                                                                               >  1:577893/1‑141 (MQ=255)
            cGATTCGGACTCAGATAGCGACACAGATTCAGACAGTGACTCAGACTCAGACAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGa                                                                                                                               <  2:342632/141‑1 (MQ=255)
               ttCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAg                                                                                                                            >  3:418960/1‑141 (MQ=255)
                  ggACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCga                                                                                                                         <  3:76197/141‑1 (MQ=255)
                   gACTCAGCTATCCACTCAGATTCAGATACTGACTCAGACTCAGATAGCGACTCAGACTCAGACAGCGACTCAGATTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCgat                                                                                                                        <  2:949607/141‑2 (MQ=17)
                    aCTCAGATAGCGACTCAGATTCAGATAGTGGTTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGAGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCcact                                                                                                                       >  4:107203/1‑141 (MQ=255)
                      tCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAACgactca                                                                                                                     >  4:369124/1‑141 (MQ=255)
                       cAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCgactcag                                                                                                                    >  2:490707/1‑141 (MQ=255)
                               gACTCAGCTTCAGATAGTGATTCAGACTCAGATAGCGACTCAGGTTCAGAGAGCGACGCAGATTCGGGTAGCGACTCAGATTCAGACAGCGACTCAGACGCGGATAGTGACTCAGACTCAGATAGCGACTCGCACTCAGAt                                                                                                            >  4:146772/1‑141 (MQ=17)
                               gACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGAt                                                                                                            >  3:338229/1‑141 (MQ=255)
                               gACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGAt                                                                                                            >  3:431927/1‑141 (MQ=255)
                               gACTCAGATTCAGATAGTGAATCAGACTCATATAGCGACTCAGACTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGAt                                                                                                            <  2:1027116/141‑1 (MQ=255)
                                  tcagattcagatAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGc                                                                                                         <  1:116085/141‑1 (MQ=255)
                                  tcagagtcagatAGTGATTCAGACTCAGATAGCGATTCAGACTCAGACAGGGACTCAGACGAGGTTAGTGACAGTGATTGGGGCTGAGACGTAGACTCGGCTGGTGACTCAGACTCAGATAGTGACTCAGACTCAGATAGc                                                                                                         <  3:7201/141‑1 (MQ=12)
                                    gtattcacgtACTGATTCAGATTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGCGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCga                                                                                                       <  2:282072/139‑1 (MQ=17)
                                    atattcagatAGCGAATCAGACTCGTATGGCTTGGCGGATTCAGACAGCCGCTTGTTTTCGAAGAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCga                                                                                                       <  1:593629/139‑1 (MQ=9)
                                    agattcagatAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCga                                                                                                       <  1:1023229/141‑1 (MQ=255)
                                    agattcagatAGTGACTCAGACTCAGATAGCGACTCAGACTCAGACAGCGACTCAGATTCAGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCga                                                                                                       <  2:403140/141‑1 (MQ=255)
                                           gatAGTGATTCAGACTCAGATAGCGACTCAGATTCCGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGAgattcagat                                                                                                >  1:503473/1‑141 (MQ=255)
                                                tGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGAttcagattcaga                                                                                           >  4:27414/1‑141 (MQ=255)
                                                    tCAGCCGCAGATATCGACTCCGCTACATACAGCGACTCAGATTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCAGACAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGc                                                                                       <  2:833583/141‑1 (MQ=14)
                                                    tCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAga                                                                                       >  4:55986/1‑140 (MQ=255)
                                                     cAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCg                                                                                      >  1:739405/1‑141 (MQ=255)
                                                      aGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGCCTCAGATTCAGACACCGACTCACACTCGGACAGCGATTCAGACTCAGATACCGACTCAGACCAACATAGCAAAACAGATGCAGATAGCga                                                                                     >  4:72050/1‑141 (MQ=17)
                                                       gACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCgac                                                                                    <  3:336992/141‑1 (MQ=255)
                                                       gACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCgac                                                                                    >  4:34446/1‑141 (MQ=255)
                                                         cttaGATAGCGACTCAGATTCAGACAGGGACATAGACTCGGATAGTGACTCAGATACAGATAGCGACCCTGACTCGGAGAGTGATTCAGACTCAGATAGCGACTAAGACGCAGATAGCAATTCAGATACAGATAGAtactc                                                                                  >  4:280813/4‑141 (MQ=14)
                                                         cTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGGCTCAGACTCAGATAGCGATTCAGATTCAGATAGCggctc                                                                                  >  3:1209/1‑141 (MQ=255)
                                                            aGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCgactcaga                                                                               >  1:926999/1‑141 (MQ=255)
                                                            aGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCgactcaga                                                                               >  3:319551/1‑141 (MQ=255)
                                                                  cGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGActcagactcaga                                                                         <  2:758265/141‑1 (MQ=255)
                                                                     cTCGGATTCAGACAGCGACTCAGATGCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGCCTCAGACAg                                                                      <  1:955888/141‑1 (MQ=255)
                                                                     cTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAg                                                                      <  1:347091/141‑1 (MQ=14)
                                                                        aGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGa                                                                   >  2:505808/1‑141 (MQ=255)
                                                                          actCAGACACCGTCTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCAGACAGCGACTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGAtt                                                                 <  2:574043/139‑1 (MQ=14)
                                                                          actCACACAGCGCCTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGACAGCGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGAtt                                                                 <  2:574076/139‑1 (MQ=255)
                                                                           ttCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATtc                                                                >  1:89330/1‑141 (MQ=255)
                                                                            tCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATtca                                                               >  1:1002321/1‑141 (MQ=255)
                                                                             cAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATtcag                                                              <  1:28127/141‑1 (MQ=255)
                                                                              aGACAGCGGCTCAGATGCGGATAGCGACTCAGATTCAGACGGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATtcaga                                                             <  1:217182/141‑1 (MQ=255)
                                                                               gACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATtcagac                                                            >  2:497423/1‑141 (MQ=255)
                                                                               gACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATtcagac                                                            >  2:199775/1‑141 (MQ=255)
                                                                                 cAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATtcagactc                                                          >  1:1022387/1‑141 (MQ=255)
                                                                                 cAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATtcagactc                                                          <  1:746485/141‑1 (MQ=255)
                                                                                   gtgACTCAGATTCCGATAGTGACTCGGATTCAGCGAGTGATTCAGATTCAGATAGCGATTCAGAATCAGATAGTGACTCAGACTCAGACCGTGATTCAGATTCAGATAGTGACTCAGACTCAGACAGCGATtcagaatcag                                                        >  2:531979/3‑141 (MQ=2)
                                                                                    cGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATtcagactcaga                                                       <  1:325629/141‑1 (MQ=255)
                                                                                      aCTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTAAGATACAAATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACa                                                     >  1:19614/1‑141 (MQ=255)
                                                                                          aGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCga                                                 >  2:780828/1‑141 (MQ=255)
                                                                                              tCGGATAGCGACTCAGATACAGAAAGCGACTCAGACACGGATAGTCATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCgactca                                             <  2:312415/141‑1 (MQ=255)
                                                                                                      cGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGActcagactcaga                                     >  3:143624/1‑141 (MQ=255)
                                                                                                      cGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGActcagactcaga                                     >  3:259521/1‑141 (MQ=255)
                                                                                                      cGACTCAGACTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACCCAGATAGCGTTTCACATTCAGATAGCTAATCAGACTCCGACAGCGATTCAGACTCAGACAGCGAcacagactcaga                                     >  4:224344/1‑141 (MQ=17)
                                                                                                         cTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCgac                                                                                                                        <  4:189472/55‑1 (MQ=38)
                                                                                                              cttCAGACAGCGACTCAGCCTCGGATAGCGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTa                             <  2:4001/140‑1 (MQ=255)
                                                                                                              actccgACAACGACTCAGTCTCCGATAGCGAATCAGATTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTa                             <  4:280409/136‑1 (MQ=17)
                                                                                                              aTTCAGACAGCGACTCAGACTCTGATAGTGATTCAGACTCAGACAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTa                             <  1:502841/141‑1 (MQ=255)
                                                                                                                tCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAg                           >  2:390988/1‑141 (MQ=255)
                                                                                                                tCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAg                           >  2:736954/1‑141 (MQ=255)
                                                                                                                 cAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGc                          >  3:444776/1‑141 (MQ=255)
                                                                                                                  aGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGca                         <  1:178909/141‑1 (MQ=255)
                                                                                                                   gACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGcac                        >  3:347753/1‑141 (MQ=255)
                                                                                                                   gACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGcac                        >  2:794776/1‑141 (MQ=255)
                                                                                                                    aCAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGtgtgtgct                       <  4:50500/141‑8 (MQ=255)
                                                                                                                     cAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGcacac                      >  1:93244/1‑141 (MQ=255)
                                                                                                                           cTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGt                <  1:665396/141‑1 (MQ=255)
                                                                                                                            tCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGtt               >  1:321227/1‑141 (MQ=255)
                                                                                                                             cAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTGAGATAGCGCTTCAGATACAGATAGCGACTCAGACTCAGACAGCGATTCAGACACAGACAGCGACTCAGACTCAGCTGCAGGTAAACACCCACCTGTTa              >  2:108699/1‑141 (MQ=18)
                                                                                                                             cAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTa              <  1:745110/141‑1 (MQ=255)
                                                                                                                             cAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCgactcagac                                          >  4:218771/1‑113 (MQ=255)
                                                                                                                             cAGACTCAGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCgactcagac                                          <  3:218771/113‑1 (MQ=255)
                                                                                                                               gACTCGGATAGTGATTCAGACTCAGATAGCGACTCCGACTCGGATAGCGATTCAGATAAAGATAGCGTCTCAGACTCAGTCATCTATTCTGCCTCAGTCAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTaaa            <  1:44433/141‑1 (MQ=21)
                                                                                                                                 cTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTAAAcc          >  4:323312/1‑141 (MQ=255)
                                                                                                                                    ggATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTAAACCAAt       >  1:528231/1‑141 (MQ=255)
                                                                                                                                    ggATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTAAACCAAt       >  1:95478/1‑141 (MQ=255)
                                                                                                                                    ggATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTAAACCAAt       >  2:258243/1‑141 (MQ=255)
                                                                                                                                     gATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTAAACCAATg      <  2:690434/141‑1 (MQ=255)
                                                                                                                                       tAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTAAACCAATGAg    >  2:732656/1‑141 (MQ=255)
                                                                                                                                         gTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAGGCACACACCTGTTAAACCAATGAGta  >  2:861137/1‑141 (MQ=255)
                                                                                                                                         gTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTAAACCAATGAGta  >  4:117399/1‑141 (MQ=255)
                                                                                                                                          |                                                                                                                                           
AGATTCAGATAGCGATTCGGACTCAGATAGCGACTCAGATTCAGATAGTGATTCAGACTCAGATAGCGACTCAGATTCAGACAGCGACTCAGATTCGGATAGCGACTCAGATTCAGACAGCGACTCAGACTCGGATAGTGATTCAGACTCAGATAGCGACTCAGACTCAGATAGCGATTCAGATTCAGATAGCGACTCAGACTCAGACAGCGATTCAGACTCAGACAGCGACTCAGACTCAGATGCAGGTAAGCACACACCTGTTAAACCAATGAGTA  >  USA300TCH1516_ALE/618618‑618895

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: