Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,055,126 T→G 5.2% T352T (ACA→ACC patA_2 ← Putative N‑acetyl‑LL‑diaminopimelate aminotransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,055,1260TG 5.2% 420.3 / 13.9 133T352T (ACA→ACCpatA_2Putative N‑acetyl‑LL‑diaminopimelate aminotransferase
Reads supporting (aligned to +/- strand):  ref base T (60/66);  new base G (4/3);  total (64/69)
Fisher's exact test for biased strand distribution p-value = 7.10e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.87e-01

Only 100 of 134 total aligned reads displayed.

TGAATTTAGTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAATCTCAAAACC  >  USA300TCH1516_ALE/1054989‑1055266
                                                                                                                                         |                                                                                                                                            
tGAATTTAGTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTATCGAATTCTGTa                                                                                                                                           >  2:609441/1‑141 (MQ=255)
tGAATTTAGTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTa                                                                                                                                           <  2:334691/141‑1 (MQ=255)
   aTTTAGTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAg                                                                                                                                        >  4:357099/1‑141 (MQ=255)
   aTTTAGTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTAAAATATTTAGCAAGTCTCTTCATACCTTCTTTGAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACAGAATTCGGTAAAg                                                                                                                                        <  2:1148307/141‑1 (MQ=255)
    tttAGTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACAGAATTCGGTAAAgg                                                                                                                                       <  4:460504/141‑1 (MQ=255)
       aGTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATg                                                                                                                                    <  2:172530/141‑1 (MQ=255)
       aGTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATg                                                                                                                                    >  4:111028/1‑141 (MQ=255)
       aGTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATg                                                                                                                                    <  2:725520/141‑1 (MQ=255)
       aGTGCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATg                                                                                                                                    >  4:270213/1‑141 (MQ=255)
        gTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGa                                                                                                                                   <  4:231774/141‑1 (MQ=255)
           cACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACTGCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGcc                                                                                                                                >  3:224062/1‑141 (MQ=255)
           cACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCACATTTTTTTATAGAAGATTCATTTCATATGTTGAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGcc                                                                                                                                >  3:223928/1‑141 (MQ=255)
            acgacgTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCt                                                                                                                               <  2:1005977/141‑1 (MQ=255)
            acgacgTCCAGTTCAACATATCATTTTTATGTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCGTTACCGGATTCTGTAAAGGATGAGCCt                                                                                                                               <  3:393794/141‑1 (MQ=255)
                  tCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACg                                                                                                                         >  3:432662/1‑141 (MQ=255)
                   ccAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATATTGATAGGAAATCCTTACAAATCCTTTACCTAATTCTGTAAAGGATGAGCCTGGAACGa                                                                                                                        <  2:53191/141‑1 (MQ=255)
                       ttCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGc                                                                                                                    <  1:40357/141‑1 (MQ=255)
                       ttCAACACATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCTTTACAAATCCTTTCACGAATTCTGTAAAGGATGAGCGTGGAACGATTga                                                                                                                    >  3:397837/1‑140 (MQ=255)
                          aaCATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTaa                                                                                                                 >  4:270601/1‑141 (MQ=255)
                            cATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAAt                                                                                                               >  3:495088/1‑141 (MQ=255)
                            cATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAAt                                                                                                               >  1:806578/1‑141 (MQ=255)
                             atatCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAAtg                                                                                                              <  2:931871/141‑1 (MQ=255)
                               atCATTTGTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCGTCTTTTAAAACATCCATTTCATAAGCATAAGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAAtgtg                                                                                                            <  2:1115831/141‑1 (MQ=255)
                                   tttttATTTAGTATTTAAATATTTAGCAAGTCGCTTCTTATATACTTTTAAAACATCCATTTCAGAAGCATAGGAAATCCTTACAAATCCTTTACTAAATTCTATCGAGGATGAACTTGGAACGATTGCTGAANATATTGa                                                                                                        >  2:893888/1‑141 (MQ=255)
                                    ttttATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGAt                                                                                                       >  1:1108242/1‑141 (MQ=255)
                                     tttatttaGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGAtt                                                                                                      <  3:296798/141‑1 (MQ=255)
                                        atttaGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCaa                                                                                                   >  3:415068/1‑141 (MQ=255)
                                        atttaGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCaa                                                                                                   >  3:415061/1‑141 (MQ=255)
                                         tttaGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAg                                                                                                  <  2:473804/141‑1 (MQ=255)
                                         tttaGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAg                                                                                                  >  3:48865/1‑141 (MQ=255)
                                          ttaGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGt                                                                                                 <  4:101231/141‑1 (MQ=255)
                                           taGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTa                                                                                                >  2:24394/1‑141 (MQ=255)
                                           taGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTa                                                                                                >  1:898234/1‑141 (MQ=255)
                                                  tAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGac                                                                                         >  1:924797/1‑141 (MQ=255)
                                                  tAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGac                                                                                         >  1:482445/1‑141 (MQ=255)
                                                   aaaTATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGaca                                                                                        <  1:358881/141‑1 (MQ=255)
                                                    aaTATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGacac                                                                                       <  2:90171/141‑1 (MQ=255)
                                                    aaTATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGacac                                                                                       <  3:217453/141‑1 (MQ=255)
                                                     atatTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGATCGATTGCTAAATGTGTTGATTCAAGTAAATCGAcaca                                                                                      <  1:863561/141‑1 (MQ=255)
                                                         ttAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAAt                                                                                  <  1:350534/141‑1 (MQ=255)
                                                         ttAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAAt                                                                                  >  4:33325/1‑141 (MQ=255)
                                                         ttAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAAt                                                                                  >  3:310473/1‑141 (MQ=255)
                                                          tAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAAtt                                                                                 >  1:187181/1‑141 (MQ=255)
                                                          tAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAAtt                                                                                 >  4:350496/1‑141 (MQ=255)
                                                           aGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTc                                                                                <  4:385577/141‑1 (MQ=255)
                                                            gCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCg                                                                               >  2:491042/1‑141 (MQ=255)
                                                             cAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGa                                                                              <  1:955614/141‑1 (MQ=255)
                                                                 tctcTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGAtt                                                                                                      <  2:176257/113‑1 (MQ=255)
                                                                 tctcTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATc                                                                          <  2:958682/141‑1 (MQ=255)
                                                                   tctTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGt                                                                        >  4:381839/1‑141 (MQ=255)
                                                                      tCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCAt                                                                     <  1:374898/141‑1 (MQ=255)
                                                                      tCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCAt                                                                     >  1:970729/1‑141 (MQ=255)
                                                                         tACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCgg                                                                  <  1:406693/141‑1 (MQ=255)
                                                                                ttttAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATg                                                           <  2:1002548/141‑1 (MQ=255)
                                                                                 tttAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGt                                                          <  1:730209/141‑1 (MQ=255)
                                                                                  ttAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGtt                                                         <  1:147627/141‑1 (MQ=255)
                                                                                  ttAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGtt                                                         <  2:973309/141‑1 (MQ=255)
                                                                                  ttAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGtt                                                         <  1:435017/141‑1 (MQ=255)
                                                                                     aaaCATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTaa                                                      >  2:57565/1‑141 (MQ=255)
                                                                                      aaCATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGCATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAAt                                                     >  3:417520/1‑141 (MQ=255)
                                                                                         aTCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACt                                                  <  2:341333/141‑1 (MQ=255)
                                                                                         aTCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACt                                                  <  2:1181731/141‑1 (MQ=255)
                                                                                         aTCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACt                                                  <  1:24394/141‑1 (MQ=255)
                                                                                          tCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACtt                                                 >  2:774937/1‑141 (MQ=255)
                                                                                          tCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACtt                                                 <  1:889139/141‑1 (MQ=255)
                                                                                              tttCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCt                                                                                                                   >  1:155124/1‑71 (MQ=255)
                                                                                              tttCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCt                                                                                                                   <  2:155124/71‑1 (MQ=255)
                                                                                              tttCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGa                                             >  1:756597/1‑141 (MQ=255)
                                                                                                  aTAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGGACGATTGCTAAATGGGTTGATTCAAGTAAATCGGCACAAAATTCGAAGTCGTCATCGGTGATATGTTTAATACTTGGGaaaag                                         >  1:1009121/1‑140 (MQ=255)
                                                                                                  aTAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAat                                         >  2:985477/1‑141 (MQ=255)
                                                                                                  aTAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAat                                         >  1:44802/1‑141 (MQ=255)
                                                                                                  aTAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAat                                         >  3:15875/1‑141 (MQ=255)
                                                                                                  aTAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAat                                         >  1:755355/1‑141 (MQ=255)
                                                                                                      gCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATaa                                     >  1:61643/1‑141 (MQ=255)
                                                                                                         tAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGGGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAAc                                  <  1:1189531/141‑1 (MQ=255)
                                                                                                         tAGGAAATCCTTACAAATCCTTTACCGAATTCTGGAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAAc                                  <  3:400685/141‑1 (MQ=255)
                                                                                                           ggAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGAtt                                                                                                      <  2:234981/71‑1 (MQ=255)
                                                                                                           ggAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGAtt                                                                                                      >  1:234981/1‑71 (MQ=255)
                                                                                                           ggAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAAcgc                                >  2:563479/1‑141 (MQ=255)
                                                                                                           ggAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAAcgc                                >  2:1057908/1‑141 (MQ=255)
                                                                                                                tCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCtt                           >  1:1019815/1‑141 (MQ=255)
                                                                                                                  cTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCa                         <  1:873929/141‑1 (MQ=255)
                                                                                                                  cTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCa                         <  1:413686/141‑1 (MQ=255)
                                                                                                                   ttACTAATTCTTTACCTATTGTTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCTACACAAAATTCGAAATCTTCATCGGTGATATGTTTAATACTTGGTAAAATATAAAACGCGCCTTCAg                        <  4:375746/141‑1 (MQ=255)
                                                                                                                   aggctcaTCCTTTACAGAATTCGGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAg                        <  2:752110/135‑1 (MQ=255)
                                                                                                                     aCAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGt                      <  1:668248/141‑1 (MQ=255)
                                                                                                                     aCAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGt                      <  3:111028/141‑1 (MQ=255)
                                                                                                                       aaaTCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTg                    >  2:1041492/1‑141 (MQ=255)
                                                                                                                        aaTCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGa                   <  3:8750/141‑1 (MQ=255)
                                                                                                                            cTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCgg               >  1:58307/1‑141 (MQ=255)
                                                                                                                                acagAATTCGGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAAt           >  3:161046/4‑141 (MQ=255)
                                                                                                                                 ccGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAAtc          >  4:76143/1‑141 (MQ=255)
                                                                                                                                 ccGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAAtc          >  2:188463/1‑141 (MQ=255)
                                                                                                                                  cGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAAtct         >  2:1075121/1‑141 (MQ=255)
                                                                                                                                   gAATTCGGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAAtctc        >  1:557383/1‑141 (MQ=255)
                                                                                                                                    aaTTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAATCTCa       <  2:127027/141‑1 (MQ=255)
                                                                                                                                      ttCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAATCTCaaa     <  2:330475/141‑1 (MQ=255)
                                                                                                                                      ttCTGTAAAGGATGAGCCTGGAACGATCGCTAAATGTTTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAATCTCaaa     <  3:270213/141‑1 (MQ=255)
                                                                                                                                        cTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAATCTCAAAAc   <  1:733236/141‑1 (MQ=255)
                                                                                                                                         tGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTTATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAATCTCAAAAcc  <  1:941359/141‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                            
TGAATTTAGTTCACGACGTCCAGTTCAACATATCATTTTTATTTAGTATTTAAATATTTAGCAAGTCTCTTCATACCTTCTTTTAAAACATCCATTTCATAAGCATAGGAAATCCTTACAAATCCTTTACCGAATTCTGTAAAGGATGAGCCTGGAACGATTGCTAAATGTGTTGATTCAAGTAAATCGACACAAAATTCGAAATCGTCATCGGTGATATGTTTAATACTTGGGAAAATATAAAACGCGCCTTCAGGTTGAGCGGTAATCTCAAAACC  >  USA300TCH1516_ALE/1054989‑1055266

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