Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE111,5600TC22.3% 256.4 / 63.4 132R210R (CGT→CGC) USA300HOU_RS00520putative lipoprotein
Reads supporting (aligned to +/- strand):  ref base T (50/51);  new base C (19/10);  total (70/62)
Fisher's exact test for biased strand distribution p-value = 1.44e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01
Rejected as consensus: Frequency below/above cutoff threshold.

Only 100 of 133 total aligned reads displayed.

TTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATTTACTTTACTG  >  USA300TCH1516_ALE/111420‑111699
                                                                                                                                            |                                                                                                                                           
tttAAGTTTTTTGCGCAATATAGCCATTTTAAAGATTTAATGAATTATAAAGCTGGAGATATATCATATAATCCAGAGGTTCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGt                                                                                                                                             <  2:1157778/141‑1 (MQ=255)
  tAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTaa                                                                                                                                           <  2:468489/141‑1 (MQ=255)
   aaGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCaaa                                                                                                                                          <  1:765733/141‑1 (MQ=255)
   aaGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCaaa                                                                                                                                          <  2:1095753/141‑1 (MQ=255)
   aaGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTaaa                                                                                                                                          >  1:804946/1‑141 (MQ=255)
    aGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTaaaa                                                                                                                                         >  2:956504/1‑141 (MQ=255)
      ttttttGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGa                                                                                                                                       >  2:504078/1‑141 (MQ=255)
      ttttatGCGCAAGATAGCAATTTTAAAGATTTAATGAATTATAAAGGTGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAAATAATGATGATTATAATGTAAAGCAATTACGCAAAAGa                                                                                                                                       >  1:965772/1‑141 (MQ=17)
      ttttatGCGCAAGATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCGATTAAGTAATGATGATTATAATGTAAAACAATTACGCAAAAGa                                                                                                                                       >  1:965726/1‑141 (MQ=17)
         tttGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGagat                                                                                                                                    >  2:290365/1‑141 (MQ=255)
         tttGCGAAATATAGCAATTTTAAAGATTTAATGCATTATAAAGATGGAGATATAGCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGGAAAACACTTACGTAAAAGatat                                                                                                                                    >  2:754626/1‑141 (MQ=21)
           ttcgcAATATAGCAATTTTAAAGATTTAATGAATTATCAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGa                                                                                                                                  <  2:284038/139‑1 (MQ=17)
           tGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGa                                                                                                                                  <  1:201741/141‑1 (MQ=255)
           tGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGa                                                                                                                                  <  1:804876/141‑1 (MQ=255)
           tGCGCAATATAGCAATTGTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCGATATCAATTAACTAATGATGATTATCATGTAAACCAATTACGTAAAAGATATGa                                                                                                                                  <  1:886528/141‑1 (MQ=255)
           tGCGAAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTAAATATCGATTTACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGa                                                                                                                                  <  2:154193/141‑1 (MQ=255)
            gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATATTGTAAAACAATTAGGCAAAAGatattaa                                                                                                                                 >  2:606975/1‑138 (MQ=17)
            gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCCAAACATATGat                                                                                                                                 >  2:233321/1‑140 (MQ=17)
            gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGGAATGat                                                                                                                                 >  2:1041406/1‑140 (MQ=17)
            gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGat                                                                                                                                 >  2:557631/1‑140 (MQ=255)
            gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGa                                                                                                                                  >  2:600475/1‑140 (MQ=255)
            gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGa                                                                                                                                  >  2:229782/1‑140 (MQ=255)
            gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGa                                                                                                                                  <  1:229782/140‑1 (MQ=255)
            gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATAATATAAGTCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGat                                                                                                                                 >  1:591485/1‑140 (MQ=17)
             cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACa                                                                                                                                <  2:514014/141‑1 (MQ=255)
             cgcAATATAGAAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATAGCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAGAACAATTACGTAACAGATATGACa                                                                                                                                <  1:328167/141‑1 (MQ=255)
             cgaaaTATAGTAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACa                                                                                                                                <  1:918817/138‑1 (MQ=255)
              gcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAACAGATGTGatat                                                                                                                               >  1:919277/1‑141 (MQ=14)
              gcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAgatatgatat                                                                                                                               >  1:1321888/1‑141 (MQ=14)
               cAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGAtata                                                                                                                              <  1:338479/141‑1 (MQ=255)
               cAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATa                                                                                                                              >  2:733192/1‑141 (MQ=255)
                 atatAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATAcc                                                                                                                            <  2:788617/141‑1 (MQ=255)
                 atatAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATAcc                                                                                                                            <  2:219711/141‑1 (MQ=255)
                    taGCAATTTTAAAGATTTAATGAATTCTAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATGAATTATCTAATGACGATTATAATGTAAAACAATTACGGAAAAGATATGATATAccgac                                                                                                                         <  1:832269/141‑4 (MQ=14)
                    taGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATAccgac                                                                                                                         <  1:146965/141‑4 (MQ=11)
                     aGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACACTTACGCAAAAGATATGATATAcagacg                                                                                                                        >  1:1258748/1‑136 (MQ=14)
                     aGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATGTGATGTACcgacg                                                                                                                        >  1:191285/1‑140 (MQ=14)
                       gaaTTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATAccgacgag                                                                                                                      <  1:107824/140‑7 (MQ=11)
                          ttttAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAACGTAAAACAATTACGTAAAAGATATGACATACCAACAAATaa                                                                                                                   <  1:1367393/141‑1 (MQ=255)
                            ttAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTCAAAGATATGACATACCAACAAATAAAg                                                                                                                 <  1:1304097/141‑1 (MQ=255)
                            ttAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAg                                                                                                                 <  2:306943/141‑1 (MQ=255)
                               aaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgcgc                                                                                                              <  1:1258907/141‑1 (MQ=255)
                                aGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGcc                                                                                                             >  2:657093/1‑141 (MQ=255)
                                aGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGcc                                                                                                             >  1:602499/1‑141 (MQ=255)
                                aGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGcc                                                                                                             >  1:630314/1‑141 (MQ=255)
                                   tttAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACTAATAAAGCGCCGaa                                                                                                          <  2:930605/141‑1 (MQ=255)
                                   tttAATGAATTATAAAGATGGACATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGaa                                                                                                          <  2:403400/141‑1 (MQ=255)
                                           aTTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCGACAAATAAATCGCCGAAGCtgttgt                                                                                                  <  1:684475/141‑1 (MQ=255)
                                           aTTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtgttgt                                                                                                  <  2:1285630/141‑1 (MQ=255)
                                                       gaaatatatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAg                                                                                      <  2:788507/138‑1 (MQ=255)
                                                         gaTATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAggg                                                                                    >  2:1338373/1‑141 (MQ=255)
                                                         gaTATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAggg                                                                                    >  1:1118902/1‑141 (MQ=255)
                                                         gaTATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTAAAggg                                                                                    >  2:164650/1‑141 (MQ=255)
                                                          atatatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTGACAAGGTACAGGGa                                                                                   >  2:1248767/1‑141 (MQ=255)
                                                            atatCATATAATCCAGAGGTCCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATGCCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAt                                                                                 >  1:962343/1‑141 (MQ=255)
                                                             tatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAtt                                                                                >  1:540635/1‑141 (MQ=255)
                                                             tatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAtt                                                                                >  1:528636/1‑141 (MQ=255)
                                                                    aaaTCCAGAGGTGCCGAGTTATTCAGCACAATATCAATTAACTAATGATGATTATAAAGAAAAACAATTACGTAAAAGATATAACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAgg                                                                         <  1:393002/140‑1 (MQ=255)
                                                                      aTCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGtt                                                                       <  1:568205/141‑1 (MQ=255)
                                                                         cAGATGTGCCTAGTTATTCAGCGCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtcat                                                                    <  2:529717/141‑1 (MQ=255)
                                                                         cAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtcat                                                                    <  1:531554/141‑1 (MQ=255)
                                                                         cAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtcat                                                                    <  2:1056403/141‑1 (MQ=255)
                                                                          agagGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtcatc                                                                   >  1:554359/1‑141 (MQ=255)
                                                                             ggTGCCGAGTTATTCAGCTCAATATCAATTAACTACTGATGATTATAATGTAAAACATTTACGTAAAGGATATGACATACCAACAAATAAAGCGCCGAAGCTGATGTTGAAAGGTACAGGGAATTTAAAAGGTtcatacgt                                                                >  2:1215913/1‑137 (MQ=17)
                                                                             ggTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAACACAATTACGTACAAGATCTGACATACCAAGAAATAAAGCGCCGAAGCTGTTGTTGGAAGGTGAGGGGAATTTAAAAGGTTACTCAGt                                                                >  1:192282/1‑141 (MQ=17)
                                                                             ggTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGACAGGTACAGGGAATTTGAAAGGTTCATCAGt                                                                >  2:1030774/1‑141 (MQ=255)
                                                                             ggTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGt                                                                >  2:424628/1‑141 (MQ=255)
                                                                               tGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTT‑AAAGGTTCATCAGTTgg                                                             >  1:689069/1‑141 (MQ=255)
                                                                               tGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTT‑AAAGGGTCATCAGTTgg                                                             >  1:841784/1‑141 (MQ=255)
                                                                               ggCCGAGTTATTCAGCTCAAGATCAATTAACTAATGATGATTATAATGTAAAGCAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGGTGAAAGGTACAGGGAAATTAAAGGTCtcatcaactg                                                              >  2:907060/2‑137 (MQ=14)
                                                                                gCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTgg                                                             >  1:703905/1‑141 (MQ=255)
                                                                                  cGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGat                                                           >  2:1082742/1‑141 (MQ=255)
                                                                                    aGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTGAAACAATTACGTATAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGATACAGGGTATTGAAAAGGGTCATCAGTGGGataa                                                         >  1:828821/1‑140 (MQ=17)
                                                                                    aGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAACACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTCGCTGCAAGGTACAGGGAATTTAGAAGGTTCATCAGTTGGctat                                                         >  2:579554/1‑141 (MQ=14)
                                                                                    aGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGatat                                                         >  2:1336129/1‑141 (MQ=255)
                                                                                    aGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGataa                                                         >  1:141658/1‑140 (MQ=255)
                                                                                      ttATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaa                                                       <  1:588473/141‑1 (MQ=255)
                                                                                           cAGCTCAATAGCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaaaaaaa                                                  <  2:800775/141‑1 (MQ=255)
                                                                                            aGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAAt                                                 <  2:1118902/141‑1 (MQ=255)
                                                                                            aGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAAt                                                 <  1:1180006/141‑1 (MQ=255)
                                                                                                  atatCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAAtt                                           >  2:723426/1‑141 (MQ=255)
                                                                                                   tatCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAAttt                                          >  1:248474/1‑141 (MQ=255)
                                                                                                      cAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACt                                       >  1:1153665/1‑141 (MQ=255)
                                                                                                         ttAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACAAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACtttt                                    >  2:219136/1‑141 (MQ=255)
                                                                                                              tAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACttttttcgg                               >  2:150359/1‑138 (MQ=255)
                                                                                                              tAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTaga                               >  2:1089361/1‑141 (MQ=255)
                                                                                                              tAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTaga                               >  2:1241703/1‑141 (MQ=255)
                                                                                                                 tgatgaTTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGaa                            >  1:563386/1‑141 (MQ=255)
                                                                                                                       ttATAATGTAAAACAAGTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATaaaaa                      <  2:1151356/141‑1 (MQ=255)
                                                                                                                       ttATAAGGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAGTTAAAAGGTTCATCAGTTGGATAT‑AAAAAATTGAATTTACTTTTTTAGAGAATAAatat                     <  2:504034/141‑1 (MQ=255)
                                                                                                                       ttATAACGTAAAACAACTACGTAAAAGATATGACATACCAACAAATAAAGCGACGAAGCTGTTGTTGAAATGTACAGGCAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGATTTTACCTTTTTAGAGAATaaaaa                      <  2:252845/141‑1 (MQ=17)
                                                                                                                        tataATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGACGAAGTTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAAt                     <  2:481014/141‑1 (MQ=255)
                                                                                                                        tataATGAAAAAAAAAAAAGTAAAAGATAAGACATACCAACAAATAAAGCGCAGAAGCTGTTGTTAAAAGGTACATGGAATTTAAAATGTTCATCAAAAAAAAAAAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAAt                     <  2:624973/141‑1 (MQ=255)
                                                                                                                        tataAGGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAGTTAAAAGGTTCATCAGTTGGATAGAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAAt                     <  2:600726/141‑1 (MQ=255)
                                                                                                                              gTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGATCATCAGTTGGATATAAAAAAATTGCATATACTTTTTTAGAGAATAAAAATGAAAat               <  1:1318712/141‑1 (MQ=255)
                                                                                                                                      aTTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtttactt       >  1:53656/1‑141 (MQ=255)
                                                                                                                                       ttACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTCAACTTGCTTTGTTAGGGAATAAAAATGAAAATAtttacttt      >  1:1055288/1‑141 (MQ=18)
                                                                                                                                          cGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATttactttact   >  1:413547/1‑141 (MQ=255)
                                                                                                                                           gTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTTGAGAATAAAAATGAAAATATTTACTTTACTg  <  1:657241/141‑1 (MQ=255)
                                                                                                                                           gTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAAGGAAAATATTTACTTTACTg  >  2:248712/1‑141 (MQ=255)
                                                                                                                                            |                                                                                                                                           
TTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATTTACTTTACTG  >  USA300TCH1516_ALE/111420‑111699

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑