Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 2,448,484 A→G 7.0% intergenic (‑243/+34) yxeP_4 ← / ← hutI putative hydrolase YxeP/Imidazolonepropionase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE2,448,4840AG 7.0% 714.7 / 30.3 227intergenic (‑243/+34)yxeP_4/hutIputative hydrolase YxeP/Imidazolonepropionase
Reads supporting (aligned to +/- strand):  ref base A (113/97);  new base G (9/7);  total (122/105)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.59e-01

Only 100 of 227 total aligned reads displayed.

TTTCGTTAATGATAGACAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTCATGATTTGGT  >  USA300TCH1516_ALE/2448345‑2448623
                                                                                                                                           |                                                                                                                                           
 ttCGTTAATGATAGACAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGt                                                                                                                                           <  2:926893/141‑1 (MQ=255)
   cGTTAATGATAGACAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGttt                                                                                                                                         >  1:1097109/1‑141 (MQ=255)
     ttAATGATAGACAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTaa                                                                                                                                       <  3:664711/141‑1 (MQ=255)
     ttAATGATAGACAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTAAAAAAAAAAAAAAAAAAGCTCTAAACATTAGTTTaa                                                                                                                                       <  2:763327/141‑1 (MQ=255)
         tGATAGACAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGt                                                                                                                                           <  4:357446/133‑1 (MQ=255)
             aGACAGTTTTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACGACAAAAAGCTCTAAACATTAGTTTAAACCAATGc                                                                                                                               >  2:1074582/1‑141 (MQ=255)
             aGACAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGc                                                                                                                               >  1:295722/1‑141 (MQ=255)
              gACAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATGCAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCt                                                                                                                              >  1:490781/1‑141 (MQ=255)
              gACAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCt                                                                                                                              >  1:376490/1‑141 (MQ=255)
               aCAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCtt                                                                                                                             <  2:1270021/141‑1 (MQ=255)
               aCAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCtt                                                                                                                             >  1:569274/1‑141 (MQ=255)
                cAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTa                                                                                                                            >  4:200755/1‑141 (MQ=255)
                  gttgttTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTaga                                                                                                                          <  1:1335973/141‑1 (MQ=255)
                   ttgttTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAGCATTGGTTTAAACTAATGTTTagag                                                                                                                         <  2:683680/141‑1 (MQ=39)
                   ttgttTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTagag                                                                                                                         <  1:182151/141‑1 (MQ=255)
                      tttAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCtt                                                                                                                      <  2:64802/141‑1 (MQ=255)
                       ttAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCttt                                                                                                                     <  1:1289360/141‑1 (MQ=255)
                       ttAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCttt                                                                                                                     >  1:191175/1‑141 (MQ=255)
                        taataaTATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAACACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTc                                                                                                                    >  2:1059921/1‑141 (MQ=255)
                        taataaTATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTc                                                                                                                    >  3:218420/1‑141 (MQ=255)
                          ataataTNGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTa                                                                                                                  <  2:1247257/141‑1 (MQ=255)
                          ataataTCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTa                                                                                                                  >  2:1476074/1‑141 (MQ=255)
                                    aaCACTGTTGTCCAACTATTCTAACTTTTATAATTTAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTAt                                                                                                        <  1:896182/141‑1 (MQ=255)
                                    aaCACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTAt                                                                                                        >  4:454585/1‑141 (MQ=255)
                                     acacTGTTGTCAAGCTATTCTAACTTTTATAATCGTGACTCTATACAAAAACGTGTTCTCGTATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATg                                                                                                       <  2:429172/141‑1 (MQ=255)
                                      cacTGTTGTCAAACTATTCTAAGTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGc                                                                                                      <  1:1395597/141‑1 (MQ=255)
                                        cTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCtt                                                                                                    <  4:380028/141‑1 (MQ=255)
                                          gttgtCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTa                                                                                                  >  1:1366123/1‑141 (MQ=255)
                                           ttgtCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTaa                                                                                                 >  2:21951/1‑141 (MQ=255)
                                            tgtCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTaaa                                                                                                <  1:635989/141‑1 (MQ=255)
                                            tgtCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTaaa                                                                                                <  1:775684/141‑1 (MQ=255)
                                               cAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGa                                                                                             <  3:533372/141‑1 (MQ=255)
                                                aaaCTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGAt                                                                                            >  2:782616/1‑141 (MQ=255)
                                                aaaCTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGAt                                                                                            <  2:616474/141‑1 (MQ=255)
                                                  aCTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATAc                                                                                          >  2:16817/1‑141 (MQ=255)
                                                  aCTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATAc                                                                                          >  2:899100/1‑141 (MQ=255)
                                                  aCTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATAc                                                                                          <  2:1014560/141‑1 (MQ=255)
                                                  aCTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATAc                                                                                          >  4:507760/1‑141 (MQ=255)
                                                      ttCTAACTTTTATAATTGAGACTCTATACAAAAACGTTTGCTCTAATAGACGTGGTTTTACATACCACAAAAAGCTCAAAACATCAGTTTAAACCAATTCTTAGAGCTTACAAATTACAGTATGCTTTAAAAGNTACtcga                                                                                      >  2:1242264/1‑138 (MQ=255)
                                                         tAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTa                                                                                   >  1:1488571/1‑141 (MQ=255)
                                                          aaCTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTAt                                                                                  <  4:554406/141‑1 (MQ=255)
                                                           aCTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATc                                                                                 <  3:212529/141‑1 (MQ=255)
                                                               ttATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACg                                                                             <  4:389205/141‑1 (MQ=255)
                                                               ttATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACg                                                                             <  2:467829/141‑1 (MQ=255)
                                                               ttATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACg                                                                             <  3:711747/141‑1 (MQ=255)
                                                                tataATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTCCGTTATACTGTGTTATCTACGa                                                                            >  1:851102/1‑141 (MQ=255)
                                                                tataATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGa                                                                            >  1:404804/1‑141 (MQ=255)
                                                                 ataCTTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGAt                                                                           <  3:502663/141‑1 (MQ=255)
                                                                 ataATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAACGATCTAAACCTTCGTTTACACAACTGCTTAGAGATTTCTAATTATTTTATGCTTTAACAGATACTGTGTTATCTACGAt                                                                           <  1:1074582/141‑1 (MQ=255)
                                                                 ataATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGAt                                                                           <  2:1369274/141‑1 (MQ=255)
                                                                  taATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATg                                                                          >  4:110875/1‑141 (MQ=255)
                                                                  taATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATg                                                                          >  1:910516/1‑141 (MQ=255)
                                                                   aaTTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGa                                                                         >  3:236505/1‑141 (MQ=255)
                                                                      taagaCTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCt                                                                      <  1:1539938/139‑1 (MQ=255)
                                                                      tGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCt                                                                      >  2:1297967/1‑141 (MQ=255)
                                                                      tGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCt                                                                      >  3:612784/1‑141 (MQ=255)
                                                                      tGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCt                                                                      >  3:35275/1‑141 (MQ=255)
                                                                      tGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCt                                                                      >  1:800548/1‑141 (MQ=255)
                                                                         gaCTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTAc                                                                   <  2:519828/141‑1 (MQ=255)
                                                                          aCTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTAcc                                                                  >  1:16926/1‑141 (MQ=255)
                                                                          aCTCTATAAAGAAAAGTATTTTGAAATATACTTGTTTTTACAAACCACAAACATCTCTAAACATTATTTTAAACCAATGCTTAGAGGTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGAttaccttacc                                                                  <  4:646945/141‑1 (MQ=255)
                                                                            tctATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGt                                                                >  4:625782/1‑141 (MQ=255)
                                                                                taCAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTc                                                                                                                    <  1:1631245/85‑1 (MQ=255)
                                                                                taCAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCttt                                                            >  1:113543/1‑141 (MQ=255)
                                                                                   aaaaaCGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTtaat                                                         <  2:1492131/141‑1 (MQ=255)
                                                                                     aaaCGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTtaataa                                                       >  2:740694/1‑141 (MQ=255)
                                                                                      aaCGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAAc                                                      <  1:1340039/141‑1 (MQ=255)
                                                                                        cGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACtt                                                    <  3:396617/141‑1 (MQ=255)
                                                                                         gtgtTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACttt                                                   >  2:249879/1‑141 (MQ=255)
                                                                                         gtgtTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATGATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACttt                                                   >  1:1570032/1‑141 (MQ=255)
                                                                                          tgtTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACtttt                                                  >  2:848651/1‑141 (MQ=255)
                                                                                           gtTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACttttt                                                 <  1:509009/141‑1 (MQ=255)
                                                                                           gtTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACttttt                                                 >  2:995417/1‑141 (MQ=255)
                                                                                              ctcGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTg                                              <  3:643550/141‑1 (MQ=255)
                                                                                                  aaTATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACATTCCCGTCTTTAATAACTTTTTCTGCGtg                                          >  2:1167589/1‑141 (MQ=255)
                                                                                                      taCTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGtgattg                                      <  1:643440/141‑1 (MQ=255)
                                                                                                             ttttACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGCGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCaa                               <  4:694391/141‑1 (MQ=255)
                                                                                                              tttACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCaaa                              <  4:615925/141‑1 (MQ=255)
                                                                                                                 aCAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATg                           >  1:1212872/1‑141 (MQ=255)
                                                                                                                  cAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGa                          >  1:266668/1‑141 (MQ=255)
                                                                                                                  cAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGa                          >  3:480013/1‑141 (MQ=255)
                                                                                                                     aCCACAAAAAGCTCTAAACATTAGTTTAAACCANTGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGatat                       >  1:1468883/1‑141 (MQ=255)
                                                                                                                      ccACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATg                      <  2:376490/141‑1 (MQ=255)
                                                                                                                         tagaaaGCTCTAAGCATTGGTTTAAACTAATGTTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTtaa                                                          <  2:1630402/99‑1 (MQ=25)
                                                                                                                         caAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGaa                   <  1:1180921/141‑1 (MQ=255)
                                                                                                                           aaaaGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAata                 >  2:1597155/1‑141 (MQ=255)
                                                                                                                             aaGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAatata               <  4:486601/141‑1 (MQ=255)
                                                                                                                              aGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAatatat              >  1:694550/1‑141 (MQ=255)
                                                                                                                               gCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATAtt             <  4:145510/141‑1 (MQ=255)
                                                                                                                                ctctAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTc            <  1:432154/141‑1 (MQ=255)
                                                                                                                                ctctAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTc            <  1:1273052/141‑1 (MQ=255)
                                                                                                                                 tctAAGCATTGGTTTAAACTAATGTTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTCa           >  1:749157/1‑141 (MQ=39)
                                                                                                                                 tctAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTCa           >  1:1625074/1‑141 (MQ=255)
                                                                                                                                 tctAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTCa           <  3:575648/141‑1 (MQ=255)
                                                                                                                                   taagcATTGGTTTAAACTAATGTTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTCATg         >  1:1024766/5‑141 (MQ=255)
                                                                                                                                     agcATTGGTTTAAACTAATGTTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATg                           <  2:845786/119‑1 (MQ=39)
                                                                                                                                     agcATTGGTTTAAACTAATGTTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATg                           >  1:845786/3‑121 (MQ=39)
                                                                                                                                     aaCATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTCATGAt       >  1:1579153/1‑141 (MQ=255)
                                                                                                                                       cATTGGTTTAAACTAATGTTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTCATGAttt     >  1:902440/1‑141 (MQ=255)
                                                                                                                                       cATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTCATGAttt     <  3:460150/141‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                           
TTTCGTTAATGATAGACAGTTGTTTAATAATATCGTAACACTGTTGTCAAACTATTCTAACTTTTATAATTGAGACTCTATACAAAAACGTGTTCTCGAATATACTTGTTTTTACAAACCACAAAAAGCTCTAAACATTAGTTTAAACCAATGCTTAGAGCTTTCTAATTATTTTATGCTTTAAAAGATACTGTGTTATCTACGATGACCTTACCGTCTTTAATAACTTTTTCTGCGTGATTGATACCAAAATGATATGGAATATATTCATGATTTGGT  >  USA300TCH1516_ALE/2448345‑2448623

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: