Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,352,815 G→A 84.5% A92V (GCA→GTA)  rpsI ← 30S ribosomal protein S9

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,352,8150GA84.5% 218.9 / 30.8 100A92V (GCA→GTA) rpsI30S ribosomal protein S9
Reads supporting (aligned to +/- strand):  ref base G (9/7);  new base A (51/32);  total (61/39)
Fisher's exact test for biased strand distribution p-value = 7.82e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.88e-01

CGTCCGACAATTAACGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAATGGTTGGTTTAAGTCTAAA  >  USA300TCH1516_ALE/2352681‑2352949
                                                                                                                                      |                                                                                                                                      
cGTCCGACAATTATCGTTTTGAGAATTGAGGTGTACGATGAGATGTTTTAAAACCTGGTTTTTTCACTGCTGTCGTTCGTAGGTTAGTAATAGTTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCta                                                                                                                                  <  1:249888/141‑1 (MQ=16)
cGTCCGACAATTAAAGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGCTCACGAGGAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCtt                                                                                                                                  >  1:554817/1‑140 (MQ=255)
  tCCGACAATTAACGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCGGCTTCtaat                                                                                                                                >  2:1034685/1‑141 (MQ=255)
     gACAATTAACGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTCAAGAACCTCTGTGTTCAGGATCTACTTCTaataat                                                                                                                             >  2:297347/1‑141 (MQ=255)
      aCAATTAACGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTATTTTTTTTTTTAAGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTaataatt                                                                                                                            >  2:508762/1‑140 (MQ=37)
      aCAATTAACGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTaataata                                                                                                                            >  1:11966/1‑140 (MQ=255)
       cAATTAACGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTCAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGc                                                                                                                           >  2:90696/1‑141 (MQ=255)
          ttAACGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACg                                                                                                                        >  1:763220/1‑141 (MQ=255)
          ttAACGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTGTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACg                                                                                                                        >  1:704709/1‑141 (MQ=255)
           tAACGTTTTGTGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTTTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGa                                                                                                                       >  2:718234/1‑141 (MQ=255)
           tAACGTTTTGGGAATTGGGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCGTACGTGGGTCACGAGTAAGTAATCTAGCGTGGTTTAAAGAACCTCTGGTTTCAGGATCGACTTCTAATCATggcagg                                                                                                                       >  2:496610/1‑136 (MQ=25)
           tAACGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGa                                                                                                                       >  1:626676/1‑141 (MQ=255)
            aaCGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAg                                                                                                                      <  1:415762/141‑1 (MQ=255)
               gTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTACTAATGCACGAGCGa                                                                                                                   >  1:973049/1‑141 (MQ=255)
               gTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGa                                                                                                                   <  1:1061735/141‑1 (MQ=255)
                  ttGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCCCGAGGGATTc                                                                                                                >  2:773005/1‑141 (MQ=255)
                     agaATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATACTGCACGAGCGATACCGt                                                                                                             >  2:633442/1‑141 (MQ=255)
                     agaATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGt                                                                                                             >  2:799291/1‑141 (MQ=255)
                      gaATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTg                                                                                                            >  2:633760/1‑141 (MQ=255)
                         ttGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACg                                                                                                         <  1:729880/141‑1 (MQ=255)
                          tGAGGTGAACGACGAGCTGCTTTAGGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTACTCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACgg                                                                                                        >  1:775191/1‑141 (MQ=255)
                          tGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACgg                                                                                                        <  2:8420/141‑1 (MQ=255)
                           ggggTGAACGACGAGCTGCTTTAAGACCTGGTTTGTTACGTACTTTCGTAGTTGGGGCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGa                                                                                                       <  2:793389/139‑1 (MQ=255)
                           gAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGa                                                                                                       <  1:908889/141‑1 (MQ=255)
                            gggTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGAt                                                                                                      <  2:843160/140‑1 (MQ=255)
                            aGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGAt                                                                                                      <  1:931104/141‑1 (MQ=255)
                              gTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTAACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATag                                                                                                    >  2:84344/1‑141 (MQ=255)
                                    gacggGCTGATTTAAGACCCGGTTTTTTGCGTTCATTCATACGTGGGTCCCGCCTATGTAACCCACCACGTTTTAAAGAAACTCTGTTAGCATGATGTACTTCTAATAATGCACGAGCGATTCCGTGACGGATagcttgag                                                                                              <  2:1018353/141‑1 (MQ=255)
                                     acgaGCTGCTTTAAGACCTGTTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATagcttgagc                                                                                             <  1:661655/141‑1 (MQ=255)
                                     acgaGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATagcttgagc                                                                                             >  2:248787/1‑141 (MQ=255)
                                      cgaGCTGCTTGAAGACCTGTTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATagcttgagct                                                                                            <  2:323155/141‑1 (MQ=255)
                                            gctTAAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCa                                                                                      >  1:759124/1‑141 (MQ=255)
                                                tAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGa                                                                                  >  1:482057/1‑141 (MQ=255)
                                                tAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGAAAAACTTGAGATTGTCCAGTGa                                                                                  >  1:571555/1‑141 (MQ=255)
                                                tAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATCCACGAGCGATTCCGTGACGGATAGCTTGAGCTTAGCCAGTGa                                                                                  >  1:594892/1‑141 (MQ=255)
                                                 aaGCCCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGaa                                                                                 <  1:892936/141‑1 (MQ=255)
                                                 aaGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGaa                                                                                 <  1:665831/141‑1 (MQ=255)
                                                 aaGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGaa                                                                                 <  1:1056280/141‑1 (MQ=255)
                                                  aGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTGGTCCATTGaaa                                                                                >  1:135131/1‑141 (MQ=255)
                                                      cTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAaccac                                                                            >  2:1056980/1‑141 (MQ=255)
                                                      cTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATACAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCATGACGGGTAGCTTGAGCTCGTCCAGTGAcaccac                                                                            >  2:579241/1‑141 (MQ=255)
                                                       tGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCAAGCTCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAaccacc                                                                           <  2:372983/141‑1 (MQ=255)
                                                        ggTTTTTTACGTGCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGCGCTTGTTCAGTGAAaccacca                                                                          <  1:553369/141‑1 (MQ=255)
                                                         gTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAaccaccac                                                                         <  1:861683/141‑1 (MQ=255)
                                                         gTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAaccaccac                                                                         <  2:942096/141‑1 (MQ=255)
                                                         gTTTTTTACGTTCTTCCATACGTGGGTCACGAGTAAGCAATCCTGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGCGCGATTCCGTGACGGATAGCTTGAGCTTGTCCACTGAAacctccac                                                                         <  1:747702/141‑1 (MQ=255)
                                                           tttttACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAAccaccacca                                                                       >  1:293609/1‑141 (MQ=255)
                                                           tttttACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTAAGCTTGTCCAGTGAAAccaccacca                                                                       >  1:667622/1‑141 (MQ=255)
                                                            ttttACGTTCTTTCATACGTGGGTCAAGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCAt                                                                      >  1:780404/1‑141 (MQ=255)
                                                             tttACGTTCTTTCATACGTGGGTTACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATg                                                                     <  2:419743/141‑1 (MQ=255)
                                                             tttACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATg                                                                     <  1:924844/141‑1 (MQ=255)
                                                               tACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTGAGGATCTACTTCTAATAATGCACGCGCGATTCCGTGACGGATAGCTTGAGCTTGTCCCGTGCAACCGCCCACATGaa                                                                   >  2:367228/1‑141 (MQ=255)
                                                               tACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGaa                                                                   >  2:977031/1‑141 (MQ=255)
                                                               tACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTATCCAGTGAATCCACCACCATGaa                                                                   >  2:367304/1‑141 (MQ=255)
                                                                aCGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAAc                                                                  >  2:595812/1‑141 (MQ=255)
                                                                  gTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGt                                                                <  2:600369/141‑1 (MQ=255)
                                                                   ttCTTTCATACGTGGGACAAGAGTAAGTAATCCAGCGCATTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGTGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGtt                                                               >  1:593031/1‑141 (MQ=255)
                                                                   ttCTTTCATACGTGAGTCAGGAGTAGGTAATCCAGCGCGTTTTATAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGCTTCCGTGACGGATAGCTTGAGCTTGCCCAATAAAACCACCACCATGAACGtt                                                               >  1:582645/1‑141 (MQ=255)
                                                                   gtCTTTCATACGTGGGCCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGtt                                                               <  1:1030076/140‑1 (MQ=255)
                                                                     cTTTCATACGTGGGTCCCGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTaa                                                             >  2:1025423/1‑141 (MQ=255)
                                                                     cTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTaa                                                             <  1:972488/141‑1 (MQ=255)
                                                                      tttCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAAc                                                            <  2:608299/141‑1 (MQ=255)
                                                                       ttCATACGTGGGTCACGAGTAAGTAATCAAGCGCGTGTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCCACATGAACGTTCACt                                                           >  1:672474/1‑141 (MQ=255)
                                                                           tACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGCTCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTaaaa                                                       >  1:410163/1‑141 (MQ=255)
                                                                           tACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAGTGCACGAGCGATTCCGTGACGGATGGCTTGAGCTTGTCCCGTGGAACCACCACCATGAACCGTAACTaaaa                                                       >  1:160746/1‑141 (MQ=255)
                                                                           tACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTaaaa                                                       >  1:635457/1‑141 (MQ=255)
                                                                           tACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTaaaa                                                       >  1:15845/1‑141 (MQ=255)
                                                                              gTGGGACACGAGTCAGTACTCCAGCGCGTTTTAAAGAACCTCTGTACTCAGGATCTGCTTCTAACAATGCACGCGCGATTCCGGGACGGATCGCTTGAGCTTGTCCAGTCAAACCACCACCATGATCTTTAACTAAAAcat                                                    <  2:209624/141‑1 (MQ=255)
                                                                               tGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATACCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAAcatc                                                   <  2:459212/141‑1 (MQ=255)
                                                                                 ggTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAAcatcat                                                 >  2:271089/1‑141 (MQ=255)
                                                                                 ggTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAAaatcat                                                 >  1:953748/1‑141 (MQ=255)
                                                                                   tcaacagtatgtaAGCTAGCGCGTTTTAAAGAATCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAg                                               <  2:389005/136‑1 (MQ=255)
                                                                                   tCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAg                                               <  2:596078/141‑1 (MQ=255)
                                                                                   ccaagAGTTAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAg                                               <  2:1010737/137‑1 (MQ=255)
                                                                                     aCGAGTAAGTAATTCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGtt                                             >  2:912991/1‑141 (MQ=255)
                                                                                     aCGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGtt                                             >  2:865133/1‑141 (MQ=255)
                                                                                                    aGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGt                              <  1:724724/141‑1 (MQ=255)
                                                                                                    aGCGCGTTTGAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGTTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGt                              <  1:204268/141‑1 (MQ=255)
                                                                                                       gcgTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAGCCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTAc                           >  2:410319/1‑141 (MQ=255)
                                                                                                       gcgTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTAc                           >  1:452931/1‑141 (MQ=255)
                                                                                                        cgTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACGTTTAGTTTCAGTTACa                          >  1:871476/1‑141 (MQ=255)
                                                                                                        cgTTTTAAAGAACCTCTGTATTCAGAACGAAGGAGTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTATTTTCAGTTACa                          >  1:253739/1‑141 (MQ=255)
                                                                                                         gTTTTAAAGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGACACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACAt                         >  1:293024/1‑141 (MQ=255)
                                                                                                            ttAAAGAACCTCTGTATTCAGGATCTGCCTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCaa                      <  1:1018309/141‑1 (MQ=255)
                                                                                                             tAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGATCGATTCCGTGACGGAGAGCTTGAGCTGGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCCGTTTCAGCaaa                     >  2:435331/1‑141 (MQ=255)
                                                                                                             tAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTAAGTAAATGATAGCTTCAGCCGCTCGAGTGAAACCACCACCATGGACGTTAACTGAAACATCATGGTTACCTTTAGTTTCGGTTTCATCaaa                     >  1:1046333/1‑141 (MQ=255)
                                                                                                              aaaGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTCAAACATCATAGTTACCTTTAGTTTCAGTTACTTCTAAt                    >  1:589338/1‑141 (MQ=255)
                                                                                                              aaaGAACCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAAt                    >  2:447349/1‑141 (MQ=255)
                                                                                                                  aaCCTCTGTATTCAGGATCGACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAAtggtt                >  1:563232/1‑141 (MQ=255)
                                                                                                                   aCCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAAtggttg               <  2:989290/141‑1 (MQ=255)
                                                                                                                   aCCTCTGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAAtggttg               >  2:433662/1‑141 (MQ=255)
                                                                                                                        tGTATTCAGGATCTCCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGGTACCTTTAGTTCCAGTTACATCAAATGGTTGGTTTa          >  1:588089/1‑141 (MQ=255)
                                                                                                                        tGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTGGTTTCAGTTACATCAAATGGTTGGTTTa          >  2:730614/1‑141 (MQ=255)
                                                                                                                        tGTATTCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAATGGTTGGTTTa          <  2:15845/141‑1 (MQ=255)
                                                                                                                            ttCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATCGCTTGAGCTTGTCCAGTGAAACCACCACCATGACCGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAATGGTTGGTTTAAGTc      <  2:1045798/141‑1 (MQ=255)
                                                                                                                            ttCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAATGGTTGGTTTAAGTc      <  1:649598/141‑1 (MQ=255)
                                                                                                                            ttCAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTCGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAATGGTTGGTTTAAGTc      <  2:657314/141‑1 (MQ=255)
                                                                                                                              cAGGATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACACCAAACGGTTGGTTTAAGtata    >  2:202037/1‑141 (MQ=255)
                                                                                                                                ggATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATGGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTCACTTTAGTTTCAGTTACATAAAAGCGTGGGATTAAGTATaaa  >  2:690323/1‑141 (MQ=255)
                                                                                                                                ggATCTACTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAATGGTTGGTTTAAGTCTaaa  >  2:808557/1‑141 (MQ=255)
                                                                                                                                      |                                                                                                                                      
CGTCCGACAATTAACGTTTTGAGAATTGAGGTGAACGACGAGCTGCTTTAAGACCTGGTTTTTTACGTTCTTTCATACGTGGGTCACGAGTAAGTAATCCAGCGCGTTTTAAAGAACCTCTGTATTCAGGATCTGCTTCTAATAATGCACGAGCGATTCCGTGACGGATAGCTTGAGCTTGTCCAGTGAAACCACCACCATGAACGTTAACTAAAACATCATAGTTACCTTTAGTTTCAGTTACATCAAATGGTTGGTTTAAGTCTAAA  >  USA300TCH1516_ALE/2352681‑2352949

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: ‑