Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,608,820 A→T 5.6% intergenic (+101/+159) USA300TCH1516_02485 → / ← USA300HOU_RS13450 hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,608,8200AT 5.6% 572.2 / 17.9 172intergenic (+101/+159)USA300TCH1516_02485/USA300HOU_RS13450hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (72/90);  new base T (3/7);  total (75/97)
Fisher's exact test for biased strand distribution p-value = 5.16e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 174 total aligned reads displayed.

ACGTAATTTTAAACAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGACTAGGGGTAGT  >  USA300TCH1516_ALE/2608683‑2608960
                                                                                                                                         |                                                                                                                                            
aataaaTTTTAAACAAGTAGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAata                                                                                                                                           <  2:579619/137‑1 (MQ=255)
aCGTAATTTTAAACAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAata                                                                                                                                           <  3:396648/141‑1 (MQ=255)
aCGTAATTTTAAACAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAata                                                                                                                                           <  3:658091/141‑1 (MQ=255)
aCGTAATTTTAAACAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAata                                                                                                                                           <  1:344817/141‑1 (MQ=255)
 cGTAATTTTAAACAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAatat                                                                                                                                          >  1:1215800/1‑141 (MQ=255)
   tAATTTTAAACAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAg                                                                                                                                        >  2:1356412/1‑141 (MQ=255)
   tAAATTTAAACAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAg                                                                                                                                        <  4:703472/141‑1 (MQ=255)
       tttAAACAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACGTCCTATATTGGatg                                                                                                                                    <  2:513535/141‑3 (MQ=255)
        ttAAACAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATTATCTACGTATGACGAAAGCCACGTCCTATATTGGatgt                                                                                                                                   <  2:909277/141‑4 (MQ=255)
           aaCAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGc                                                                                                                                <  1:26505/141‑1 (MQ=255)
               aGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCtttt                                                                                                                            >  1:936893/1‑141 (MQ=255)
               aGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCtttt                                                                                                                            <  3:380386/141‑1 (MQ=255)
                gTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCGTTTa                                                                                                                           >  2:314540/1‑141 (MQ=255)
                gTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGAAGTGGCTTGTa                                                                                                                           >  2:61457/1‑141 (MQ=255)
                 ttGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAg                                                                                                                          <  2:865352/141‑1 (MQ=255)
                 ttGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAg                                                                                                                          <  2:1643850/141‑1 (MQ=255)
                       aTGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGt                                                                                                                    >  3:618727/1‑141 (MQ=255)
                        tGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGtt                                                                                                                   <  2:1520539/141‑1 (MQ=255)
                         gAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATACAATGTAGGACGTGGCTTTTAGTATCGTTc                                                                                                                  <  2:419677/141‑1 (MQ=255)
                              aTTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGAt                                                                                                             <  3:447710/141‑1 (MQ=255)
                                 cTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTtg                                                                                                          >  2:1065639/1‑141 (MQ=255)
                                  tAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTtgt                                                                                                         <  2:1289733/141‑1 (MQ=255)
                                  tAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTtgt                                                                                                         <  3:474150/141‑1 (MQ=255)
                                   aaTATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTtgtg                                                                                                        >  3:11140/1‑141 (MQ=255)
                                   aaTATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTtgtg                                                                                                        <  4:588508/141‑1 (MQ=255)
                                   aaTATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTtgtg                                                                                                        >  3:93252/1‑141 (MQ=255)
                                     tatCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTggg                                                                                                      >  3:708245/1‑141 (MQ=255)
                                      atCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTgggg                                                                                                     >  2:1095363/1‑141 (MQ=255)
                                        cATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAg                                                                                                   >  1:644104/1‑141 (MQ=255)
                                         aTTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGt                                                                                                  <  2:1587020/141‑1 (MQ=255)
                                             cGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAgg                                                                                              >  1:72922/1‑141 (MQ=255)
                                             cGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAgg                                                                                              <  4:346854/141‑1 (MQ=255)
                                              ttttATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAggg                                                                                             <  1:1340721/140‑1 (MQ=255)
                                              gTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAggg                                                                                             <  2:828245/141‑1 (MQ=255)
                                               tttATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGATTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGGTAGGGt                                                                                            >  4:359773/1‑141 (MQ=255)
                                                ttATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGtt                                                                                           >  1:515177/1‑141 (MQ=255)
                                                  atatataGCAGACATGATAGAATTTTATATGTAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTAc                                                                                        <  1:1353385/141‑1 (MQ=255)
                                                    atataGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACt                                                                                       <  2:974570/141‑1 (MQ=255)
                                                    atataGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACt                                                                                       <  3:426750/141‑1 (MQ=255)
                                                        aGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACttaat                                                                                   <  1:1099544/141‑1 (MQ=255)
                                                          cAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACttaatta                                                                                 <  1:559589/141‑1 (MQ=255)
                                                           aGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATGGTTCCAGATTTGTGGGGAGTTAGGGTTTACttaattca                                                                                >  2:645822/1‑139 (MQ=255)
                                                             aCATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAg                                                                              >  1:195129/1‑141 (MQ=255)
                                                              cATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAgg                                                                             >  2:260700/1‑141 (MQ=255)
                                                                    aGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTg                                                                       >  1:1315967/1‑141 (MQ=255)
                                                                    aGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTg                                                                       <  1:80921/141‑1 (MQ=255)
                                                                     gAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGc                                                                      <  2:58064/141‑1 (MQ=255)
                                                                       aTTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGccc                                                                    <  3:72445/141‑1 (MQ=255)
                                                                        ttttATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGtt                                                                                                                   >  1:1372230/1‑93 (MQ=255)
                                                                        ttttATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCt                                                                   <  1:511769/141‑1 (MQ=255)
                                                                        ttttATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCt                                                                   <  2:1537970/141‑1 (MQ=255)
                                                                        ttttATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCt                                                                   <  1:1266263/141‑1 (MQ=255)
                                                                            atatGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAGGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGCTTTGTGGGGAGTTAGGGTTTAATTAATTACAGCGGTCTGCCCGCAAt                                                               >  2:1423377/1‑141 (MQ=255)
                                                                            atatGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGGTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCact                                                               >  1:749980/1‑139 (MQ=255)
                                                                              atGTAAATCTTGTAGGTAAACGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTg                                                             <  1:89796/141‑1 (MQ=255)
                                                                               tGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGc                                                            >  1:964893/1‑141 (MQ=255)
                                                                                gTAAATCTTGTAGGTAATCGGTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCt                                                           >  2:758418/1‑141 (MQ=255)
                                                                                 tAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTc                                                          <  4:417279/141‑1 (MQ=255)
                                                                                 tAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTc                                                          <  1:1115971/141‑1 (MQ=255)
                                                                                  aaaTCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCa                                                         <  4:636226/141‑1 (MQ=255)
                                                                                  aaaTCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCa                                                         <  2:121065/141‑1 (MQ=255)
                                                                                     tCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCa                                                      >  2:322353/1‑141 (MQ=255)
                                                                                        tGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACg                                                   <  3:645086/141‑1 (MQ=255)
                                                                                         gTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGa                                                  >  1:486249/1‑141 (MQ=255)
                                                                                         gTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGa                                                  <  2:1229744/141‑1 (MQ=255)
                                                                                             gTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCGATTGCTCACCAACGAGGGc                                              <  1:714452/141‑1 (MQ=255)
                                                                                              tAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCa                                             >  4:220551/1‑141 (MQ=255)
                                                                                                aTCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAg                                           >  4:242661/1‑141 (MQ=255)
                                                                                                   gTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTa                                        >  1:1043343/1‑141 (MQ=255)
                                                                                                      ttAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGCGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACat                                     >  3:579751/1‑141 (MQ=255)
                                                                                                        aaaaaTAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTGAAGATTAGTGTGGATGTAAGGTTTTCTTAATTATAGGAGTCTTCCCTCAATTGCTCGCCAACGAGGGCAAGTTACgtca                                   >  1:1653313/1‑141 (MQ=255)
                                                                                                        aaaaaTAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCNGCCNTCAATTGCTCACCAANGAGGGCAAGTTACatca                                   <  1:1511114/141‑1 (MQ=255)
                                                                                                         aaaaTAATATAAGTATGACTAAAGCCACATCCAATATAAGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGAGTTTGCTCTCAATTGCTAACCAAAGAGGGCAAGTTACatcaa                                  >  4:307712/1‑141 (MQ=255)
                                                                                                             taataTAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATcac                              <  3:630083/141‑1 (MQ=255)
                                                                                                                tataAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACt                           <  3:267437/141‑1 (MQ=255)
                                                                                                                tataAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACt                           >  1:1006168/1‑141 (MQ=255)
                                                                                                                tataAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACt                           <  3:31401/141‑1 (MQ=255)
                                                                                                                  taAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTc                         >  1:207753/1‑141 (MQ=255)
                                                                                                                    aGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCaa                       >  3:544448/1‑141 (MQ=255)
                                                                                                                     gTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAAt                      <  1:1054515/141‑1 (MQ=255)
                                                                                                                        tGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTgc                   <  4:582894/141‑1 (MQ=255)
                                                                                                                         gACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGGTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGCGGGCAAGTTACATCAATCACACTTCAATTgcc                  >  2:162417/1‑141 (MQ=255)
                                                                                                                          aCTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGt                                          >  2:1145074/1‑116 (MQ=255)
                                                                                                                          aCTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGt                                          <  1:1145132/116‑1 (MQ=255)
                                                                                                                          aCTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTgccg                 <  1:987661/141‑1 (MQ=255)
                                                                                                                          aCTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTgccg                 <  1:1268519/141‑1 (MQ=255)
                                                                                                                           cTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATGTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTgccgc                <  4:677375/141‑1 (MQ=255)
                                                                                                                            tAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTgccgcc               >  3:340331/1‑141 (MQ=255)
                                                                                                                             aaaGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGccgccg              >  1:402717/1‑141 (MQ=255)
                                                                                                                              aaGCCACATCCAATATAGGGCGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGa             <  2:73037/141‑1 (MQ=255)
                                                                                                                              aaGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGa             >  4:178564/1‑141 (MQ=255)
                                                                                                                               aGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGAc            <  1:324375/141‑1 (MQ=255)
                                                                                                                               aGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGAc            <  1:619214/141‑1 (MQ=255)
                                                                                                                                 ccACGTCCTATATTGGATGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCaa                                                     <  4:547813/98‑1 (MQ=38)
                                                                                                                                  cacgtCCTATATTGGATGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGACTAg         >  1:343596/5‑141 (MQ=255)
                                                                                                                                    caTCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGACTAggg       >  2:776488/1‑141 (MQ=255)
                                                                                                                                      tCCTATATTGGATGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCa                                                         <  1:982579/89‑1 (MQ=255)
                                                                                                                                       ccAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGACTAGGGgta    <  1:86329/141‑1 (MQ=255)
                                                                                                                                        cAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGACTAGGGgtag   >  2:1027545/1‑141 (MQ=255)
                                                                                                                                         aaTATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGACTAGGGgtagt  <  3:220551/141‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                            
ACGTAATTTTAAACAAGTTGAAAATGAAGGATTCTAATATCATTTCGTTTATATATAGCAGACATGATAGAATTTTATATGTAAATCTTGTAGGTAATCGTTTTAAAAATAATATAAGTATGACTAAAGCCACATCCAATATAGGACGTGGCTTTTAGTATCGTTCCAGATTTGTGGGGAGTTAGGGTTTACTTAATTAAAGGGGTCTGCCCTCAATTGCTCACCAACGAGGGCAAGTTACATCAATCACACTTCAATTGCCGCCGACTAGGGGTAGT  >  USA300TCH1516_ALE/2608683‑2608960

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: